bio-polyploid-tools 0.1.0
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- checksums.yaml +7 -0
- data/Gemfile +16 -0
- data/Gemfile.lock +67 -0
- data/README +21 -0
- data/Rakefile +61 -0
- data/VERSION +1 -0
- data/bin/bfr.rb +133 -0
- data/bin/count_variations.rb +36 -0
- data/bin/filter_blat_by_target_coverage.rb +15 -0
- data/bin/find_best_blat_hit.rb +32 -0
- data/bin/hexaploid_primers.rb +168 -0
- data/bin/homokaryot_primers.rb +155 -0
- data/bin/map_markers_to_contigs.rb +66 -0
- data/bin/markers_in_region.rb +42 -0
- data/bin/polymarker.rb +219 -0
- data/bin/snps_between_bams.rb +106 -0
- data/bio-polyploid-tools.gemspec +139 -0
- data/conf/defaults.rb +1 -0
- data/conf/primer3_config/dangle.dh +128 -0
- data/conf/primer3_config/dangle.ds +128 -0
- data/conf/primer3_config/interpretations/dangle_i.dh +131 -0
- data/conf/primer3_config/interpretations/dangle_i.ds +131 -0
- data/conf/primer3_config/interpretations/loops_i.dh +34 -0
- data/conf/primer3_config/interpretations/loops_i.ds +31 -0
- data/conf/primer3_config/interpretations/stack_i.dh +257 -0
- data/conf/primer3_config/interpretations/stack_i.ds +256 -0
- data/conf/primer3_config/interpretations/stackmm_i_mm.dh +257 -0
- data/conf/primer3_config/interpretations/stackmm_i_mm.ds +256 -0
- data/conf/primer3_config/interpretations/tetraloop_i.dh +79 -0
- data/conf/primer3_config/interpretations/tetraloop_i.ds +81 -0
- data/conf/primer3_config/interpretations/triloop_i.dh +21 -0
- data/conf/primer3_config/interpretations/triloop_i.ds +18 -0
- data/conf/primer3_config/interpretations/tstack2_i.dh +256 -0
- data/conf/primer3_config/interpretations/tstack2_i.ds +256 -0
- data/conf/primer3_config/interpretations/tstack_i.dh +256 -0
- data/conf/primer3_config/interpretations/tstack_i.ds +256 -0
- data/conf/primer3_config/interpretations/tstack_tm_inf_i.dh +256 -0
- data/conf/primer3_config/interpretations/tstack_tm_inf_i.ds +256 -0
- data/conf/primer3_config/loops.dh +30 -0
- data/conf/primer3_config/loops.ds +30 -0
- data/conf/primer3_config/stack.dh +256 -0
- data/conf/primer3_config/stack.ds +256 -0
- data/conf/primer3_config/stackmm.dh +256 -0
- data/conf/primer3_config/stackmm.ds +256 -0
- data/conf/primer3_config/tetraloop.dh +77 -0
- data/conf/primer3_config/tetraloop.ds +77 -0
- data/conf/primer3_config/triloop.dh +16 -0
- data/conf/primer3_config/triloop.ds +16 -0
- data/conf/primer3_config/tstack.dh +256 -0
- data/conf/primer3_config/tstack2.dh +256 -0
- data/conf/primer3_config/tstack2.ds +256 -0
- data/conf/primer3_config/tstack_tm_inf.ds +256 -0
- data/lib/bio/BFRTools.rb +698 -0
- data/lib/bio/BIOExtensions.rb +186 -0
- data/lib/bio/PolyploidTools/ChromosomeArm.rb +52 -0
- data/lib/bio/PolyploidTools/ExonContainer.rb +194 -0
- data/lib/bio/PolyploidTools/Marker.rb +175 -0
- data/lib/bio/PolyploidTools/PrimerRegion.rb +22 -0
- data/lib/bio/PolyploidTools/SNP.rb +681 -0
- data/lib/bio/PolyploidTools/SNPSequence.rb +56 -0
- data/lib/bio/SAMToolsExtensions.rb +284 -0
- data/lib/bio/db/exonerate.rb +272 -0
- data/lib/bio/db/fastadb.rb +164 -0
- data/lib/bio/db/primer3.rb +673 -0
- data/lib/bioruby-polyploid-tools.rb +25 -0
- data/test/data/BS00068396_51.fa +2 -0
- data/test/data/BS00068396_51_contigs.aln +1412 -0
- data/test/data/BS00068396_51_contigs.dnd +7 -0
- data/test/data/BS00068396_51_contigs.fa +8 -0
- data/test/data/BS00068396_51_exonerate.tab +6 -0
- data/test/data/BS00068396_51_genes.txt +14 -0
- data/test/data/LIB1716.bam +0 -0
- data/test/data/LIB1716.bam.bai +0 -0
- data/test/data/LIB1719.bam +0 -0
- data/test/data/LIB1719.bam.bai +0 -0
- data/test/data/LIB1721.bam +0 -0
- data/test/data/LIB1721.bam.bai +0 -0
- data/test/data/LIB1722.bam +0 -0
- data/test/data/LIB1722.bam.bai +0 -0
- data/test/data/S22380157.fa +16 -0
- data/test/data/S22380157.fa.fai +1 -0
- data/test/data/Test3Aspecific.csv +1 -0
- data/test/data/Test3Aspecific_contigs.fa +6 -0
- data/test/data/patological_cases5D.csv +1 -0
- data/test/data/short_primer_design_test.csv +10 -0
- data/test/data/test_primer3_error.csv +4 -0
- data/test/data/test_primer3_error_contigs.fa +10 -0
- data/test/test_bfr.rb +51 -0
- data/test/test_exon_container.rb +17 -0
- data/test/test_exonearate.rb +53 -0
- data/test/test_snp_parsing.rb +40 -0
- metadata +201 -0
@@ -0,0 +1,8 @@
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>2AS_5222932 6364 267569 1716390+,...,724070+
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CAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACTAAAAGATATCGGGGAGGCGGATACACAGCTTACATCACACCCCGTGCTACAAGCAACTAAAGATTGGAAAAAGAGAAGCCCGGTCGCATAGTGAGAAGTCTTCCATCTCGAAACATGTGCGAAGAAGAAGATCGCCAAGGGAAATGCCAACTGACTTGGCAACAAACTCCCCGTACGCCGACCCTGAGACACAAGAAGACGCCACACCCCCTACACCCTCACTGAAGGAGGACTTTACCCCTCGTCCTAGCTCAAAGGACGCCGCACCATTGAGCGAGGGATGTGTTCAACCTAGAACAGGAATGGTGTGGTCTTGAGGTCACAGGAGCCGAGCACATACACGCGACCCGCCACACCGCAGCGGGCAAACCATGGTGGCCATGAAGAAACGTCCGCACAATGCCTGGAACAAGAAGGGGGAACCTGTAGGAGAGGTTCACGGAAATCGAAGAAGCGGCAAGCTCAAGGCGGACAACAAGCACACAATATAAGCACAAGGAAGAAGGACCGGGTAACTACATGCCGCCACGAACAAACGTCGGGAAGGGGAACCCTTTCCCCTCCCACCCAGGTTCAAGGGTGATGAACCACCGACGAATAGGGCAGCGAATACCTCACTGAAGATAGTATACTCAACGCTTCACACAAACTGTCGCTCGAAACCCACAACAACCACAAAATTAACCACATGGCACCACACACCAGCCTCTCCTTGCCAAACGACTCCCCCAGGGAGGTAACAACACCGAGCGTCGCCGCCGCCGCATCCACAGGGATAACAGGAATTAACCTTGGGTCAAAGAAGAGGGGTAAGGAGAAGGGATCACGTCGGTGCCTCCAAGGAGGGGAGCAGCGCCAGCAGGCGGTGTCACCGACGTGGTCGGCCAAGCCACCAAAGGATTTCTCTCGAACCCAACTCACACCACCATGCCCGGCGATACAAGATCACCACCACGAGATCCGGCCGGAAGTGGACCAAATGGGAAAAAGGAGTGACCTTCAGATATGACGCCAGAAGAACCGCCGGAGCAGACCGCCGACCATGAACCGCACCTGTCGTCGCCGCACTGCCCACACGGCTGAGGACGCCGACCCTCTCGTGTGAGCATCGCCAGCCGCGAAGACGGCGTCGCCTCTCCAAGAAGGTTCGCCGCCTGGAGCCCAAAGCCCTCCGCCGAGACCGGAGCGACGAAATCCCCGTTGCCACCTTCACCGTAGGCTGCGCGGGGTTGCCCGGCAACCAGTGGCGGACCTAGAATCATAGGCTTGGGGGTGCCATAGTTCAATGTTCACATTAAACGTCATCATAATCTCAATAAATAGTCTTAAAATAGCAACAACTTGATGAATATGTAGCGTGAGGTATAGAGTAAAATTTATTTTACAACTTTGAAGGGGTGCCTGGCACCCACGGCCTCAAATTAGTTATGGCGGTGGCCAAGGTTTGATATCATCTTGGAATCGTCCACGGGAGCGATTCGGTGACCAAGGTCTTTTCTGTAAACTAAACTTATTCCCTATGCTGGCCTTATCAATTCCGAGTTAATCAAACCCATCAAAATCGAATTGAAGGAGCAAATTGATAAAATACGATTTTCTGCTTTGACACATCATCATTGTTCTCCTTTGATGGAACATCTTGACCATCAAACATCCACATTTAACCCCTTAAAAGAACACATTCTACATTTAAGCTAGCGCTTTCTTCTGTCTTGCCCCCTTGCCAAAAACACAAGATATTCCACGCTGCCAAACACACCAATCGGAAAAAGGCAATTTTCACTTTTCATCGATTAGAAGCAGCTCCGAAAAGGAAAAGAAGCAACCATCTCTCCCCACCCCACCCCGGCCCTGCTCCCCGCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGGGCGGGGGTGAGTGGCGAGCCTCCCTCGCCGCCTTGCGCTGCACAGGAACAAGGCGAGAGCGATCGGCGTCGGGATGCTGAGGCGGCGGCTGAGCTCCCTTCTCCTCCGATCCCCGTGCTCCTCCTCCGCCGTCGCTTCCTCCTACCAGCAGCAGCAGCACCTCCTCCTCCCCACCCACGCCGAGGTAACCCCCACGGTTCCCCTTTCTTTCCCTCCCGCGCATTTCGTCGAACGCCTCGCGCGCGCGCACAACGTGGCCGGACCGGATCTGGCCTGCACTCCTTTCTCGCTCCGTTTGGTTCAATGCGTGCCTGCCGTTCCTAGATGCTCATCCGCCTGACTGTTTTCCTCGCAGAAACCGCCGGCCCTGAATCTGCTCAGGCTCTTCACATCCCTAGCTGTACGTTTGTTCCCAAACCCGCATTCTTATTATTTGTGACAACTATGCAGACTGCATGTGAATAATTGGTGGTGTGTCCTCTGTTCATTCTGTAGGGAACCGATGGGGACAGGCCGTTCATCGCTTTTGTCTTGGGTAGTTTTTCCCTGCTTTTACTCCCAAAATGTAGCAGGATTGTTGTTTTCGTTCTTCGAAACGGAGGGCAAAGCTTTGCAGGGTCGGTTTTACATTTATAAAGTTCCATGCATATCTGTGTAGAGTAAACCGAGGAACCCTTGCCTCAATGATAATCAGTGCTGTTTCACATTTATAATCGCTTTCGTCTTAGGTAAAAAAATAAATCTACTAGTACTCCCCCAATATTGCAGGGTTGGTTTCACATTTACATACTCCATGCATAACCTGTGTAGAGTAAATTGAGGATCACTTCTATCAATGATAACCAGTGCTGTTTCAAGTTGGATTGTGTTGTGGCGCTCAAATTTCAGTTGTTCACACGACTAATCAAGATCCTGCATATAGGGGGACCTGGGAGTGGGAAAGGAACGCAATGTAGTAGGATCGCTTCGGATTTTGGATTTGCTCATGTGAGTGCTGGTGACCTTCTACGGAATGAAATAGCTTCTGGCACTGATCATGGGTAATTCTTCTTTCCGTTTGATCCTCTGACAGCCTTATAATGACCCACACGCACATGCATGGTTCGGTGAATTGATTTTTCAGTTTCATGGCATTTGCCAGGGAGTGGATCCTAGAGATAATAAGGGAAGGGAGGATTGTTCCATCAGAGATAACTGTTGAACTCGTCAGAAAAGCAATTGAATCAAGCTCTGCTAAAAGGGTTCTTATTGATGGTTTCCCAAGGTGTGAGGAAAACAGAATTGCCTTTGAAAAAATAGTAAGTTTTCTGTTTGGCTTGCATTACTGGTCCAGAACTTTCTATTGATTGAAATAGTATGTGATGAGATGGATAAGTCCATGCTGTTCATCAGTTTCTGTTCAATTTTTGGGAAGGCTAATAACAGGTGAATCTTCACGTTTTCTAGCGCTCTTGGCTGTAACCATTTGTGTATACACACTTGTCTTTACATTTTTACGCCAATATGCTGGCCCAAAACTGCCAGTGTACAGTATGCAATCAGCAGTTTCTTATGCATGTATTTTCTTTTAGTAGCAAATCAGTAACTATGTCCTGCTCTAGAGTGATGCACTTTTAGGATTTATGCAGTAGTCCACAGTTATGTCAGCCCCACTATGGTGGATGTATAGTTGCATCTCAACAACTACTACAAGCATTTATATCAAAGAATGTGTGTGCTGTGGTCGGGCAATTAGAAGACACTGGCATACCAACTAAGATATGTTTCATTGTTGTCCACTCAATAATTGCTAGTCAGATAGATGTAGATTGCATGATCCTGTTCTGATATGTTGACTCATAAATTTCAGACTGGAACTGAACCAGACCTTGTGCTTTTCTTTGACTGTCCTGAGGATGAGATGGTTAAACGTCTCCTAAGCCGTAACCAGGTTGGTCTTCGTATTATCTCTGGAGTAAATTGTGCTAGATATATATACACTATATGAGTACTGTACATTTCCCAATTCTTATTCGGAACTTACTCCATATGTGATTTTCTGAGATTTTATTTCCCAGCCGTTACTTTCGGCTTTGACAATTATCTTCTTATTACTCCCTCTCTTAACTAACATGAAATATAGCATTCCTAAAGGATAGTCCTTGTGGATTGCCACAAATGATTTTCTTCTTCATATGTCATTTAAATTGAAGAGAAGAAACACTAATCTAATTAGTGTAGTTCGTGCATATCAAAATGGGAGGTTGATTAATGCTCTAGCGGAGTTTCCTTTCAAAAATATCACATTAGATTGATCTCTTTATTGTTTTTGTTTTTTCGATTATCTCATGTATGCGTCTTAGGGACGAGTTGATGATAACATTGAGACAATCAAGAAGCGTCTAAAAGTATTCGAGAGTTTGAATCTTCCTGTTGTTGAGTACTACTCTTCAAGGGGAAAGGCACACAAGGTAATTAATCTATTTATTTTATGCCGAGTGTCCTGGACAGGAGCACTTCTTGTACCTTTCTTTTATGAACCGTACCTTTACCTTTTGACATGCATTTTCCTATTTCCTTCACACGGAAACAGAGCTCTACCTTCTGTTGTAGAAGTTGATCCAAAAGGCTTCTTAATGTGCAACATTAAACTATACCTGGCTTATTTTCTTGAACTTTTACAAATGCCAATATATATTTGAGAAACATCAAACATATGGGTTACCAATGTATAAATAGCAGGATAGTGTTTCCAGGGAATCATAGGACAGAGAGGCAGAGCCAGGATGCGATTCCCTCGTGTTCTGAATTCATATAACTGCAAGACCATTTTTCTATGGTGTGGGGAGGGGAGTGAGATCAGAGATCTGCGTATTTATTTGATATTAGATGAGTGTCTGCAATTCACTCATTTTGGAAGAAATTGCTAATCTCTTCAGAAGGGGTACATATCAGGGATATAACACAGTAACATATTCTGTATACCACTCATATTCAGGATCTGTAGGATGTCTTATTTATTTTTGAGACTTGACCTTTAGGGTGTCTAAGAGTACTTGTTGAACTCCATGCAGATAAATGCAACGGGAACTGAAGATGAAATCTTTGAAGCAGTTCGCAAGTTGTTTTCCTCCTTAAGGTAAATCCTGATGTTTAAGACACGAAATTCCTCTCATTTACTGTGACTATGTCCGCTCTCCTGAAGGAGATGCACATTCTTGCATCATCTGATTTCTGATTGCTTGCATATTATTTTCTAGTCCCAATTACTGTAGTTCTGAAAGCTTTTCAGTCCTCACATATTTAGCATATCCCAACCCTCAGTCCTCACATATATTGCAGCACCCACACTTTTTCAATACATTAACAAGTGATGGCATGTTCTTTATACTAAGCCTGCCATTGCAGCTAGGGCAGGCCGTCGCTATAAGCAGAAGGGTATTGCTTGTAGGTACAAAGAGCTTGCGTTCCTGAATCCTTGCCATTTGTGTTCACTGTGCACAATAAAGAAAGACAAACTGACAAGCAAAATGAACATGGTAGCATTTATCTTACTGATTGATGGATAAGGAAGAAGAGGTCCAGGATGTTGCTACGTCGCAAACTTTGTCATCTAGCTGACTCGCCGAACCCTCGCCTGTAGCTAGTTTCTCGACACGTTTGACTAAGCAACGCTAGCAACTTGCGGTTGTCCCAGCTTATGATAAAGATGCACTCCTACTTTGTTGCTACATATACACAAGGTAGTTGCAATCATTTGACCATTTCACCCTGTTTGCAGGCTATGAGGAGGCTGTCGTCTTCCGCGCGAGCGGGGGGAATTGGAATTACGCCTGGCGGAAATTCTCTCTCCCTCTTTTCTTTTACCTTTACATCTCTTAGCATAATAATTGTACATATTCTGATACACGGACCATTCCTGTGAAAACAGAGGGCCCCTGGTGAAACGCCCAGCCTGCCTGCTATGATAAACCCTGACCCTTGCGCTCTCGTCACGCGCCACGGTATACGATACTTCAGACTGCAGCAAAACTGCTACAACGATATTTTTTTTCTGCCAACACCCTACAAATATATGTCTGCCGTGTTTTTTTTACCAGGATAATATAGTTGTATGTATGTGCGCCGTGCTTGTGTTGTGACGATTTGCTGGGTATATATCTATGGAGAGATGAGGTGAGAGCTGCAGGCGTCCGATAAACTAGTGATTTGACTGGAGGAAAAAGGCCGTGTACGTTTGGATTTAGTTAATGTGAACTGCCGGCGTGTTATTGTCAGTTCTTGACCGGCCGTTTAGCAGTAGCTGATGCCATCTTCAAACGCTCGCCAAAAAAAAAAA
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>2BS_5245544 8836 99090 5145698+,...,1324530+
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+
CGCCACTGCCTCCAATTCACACATTCATGAAGTTCCGGATGTAGTTTTGGTCAAGTTTGAACCCATTTTTCCCTTTCAAAAGTCTTCATTACAAGTGTGAAGATCTCTGTCTATAGATTTGCCTAAAATGTACATTCATACATTCTGCTAGGTTCTACTCCCTCCGTCTCAAAATAAGTGACTCAACTTTGTACTAGCTCTAGTATAAATTTGTACTAAGCTCAAGACACTTATTCTGGGACGAAGGGACTATAATGTAATTATATATTGCGGGAGAAAATAATAGTCACATTTATGTGTGTCTTTTTTCCGCGGGGGCACATTTTATGTTTTCTTGATTGTGTGGATGTGCAAAACGCCATCTTTTTTCGGAGACAAGCACTTCAACTCCCCCTCTTTTGGGGGGATGGAAAGATATAGATGAGAAATTTTTGGCTGGCTATGACATGCCCGGTTGGAGTTTTGCTCCCCAAAAGTCTTCACATGACCTCACTCCATGGAGTCATGGCAGCTTGGTGCAGTCGATGCCGACGTTGCTCGTGACGAATCATCTTTCTCTCCATGCCTAGATTCCAACACAAATTTCAGGTTCACCTCAACCTCTTCATTCCCCGGATTATGTGCGTGCGATCGAGACAGTTTTCACATGCCCGGATTATGTACCTAGCCAAAAAAATAATAATAACGCTGCGATTTTTCCGCGTTTCGCGATCATCTATGTTGCCTTCGCGTGTGTGTTCATATCAATTTCGCGTGTTCCACTCGCAATCATGCGTGCTGCCTTTGCATATATTCCAATCGAATTCGTGTGTTCCATTCCTAGGATCCAAAGAGGCCCTCCGAGAAGTCCACCTGTCAGCGCGACGATGACGATGACGACACGCCGGCTCTGTAGCAAGTGCCAGGTGCCCGCGCTCCATGGCTTGCAAGGCGATGATGCAGGCAAGAAAAATGAGTCAATAGTAGCAGAGCTTTCTCCTCCCGTGGAGTGCACAGACAGACAATCTTTTGGAAACGGGGAGTTTTTAGATTAGACTTGGCGTGCAAGCGCCGGCGCTCCACATTTTTTTTTTCTTTCAAGATCGCATCAGCTAAACCTAAACGGCCGGTCAAGAACTGACAAAAACACGCCGGCGGTTCACACTAACTAAATCCAAACGTACACTCTCTTTTCCCTTGAGTCAAATCACTAGTTTATCGAACGCCTGCAGTTCTCACCTCGTATACAAATAGCAGATTGTCACCAGACAAGCACGGCGCACATACAACAATATCATATTCTAGTAAAAAAAACAACAACAGGGCAGGCATATACTCCCTCCGTCCAAAAATACTTGTCATCAAAATAGATAAAAGAGATGTATCTAGAACTAAAATATGTCCCATTTTGATGACAAGTATTTCCAGACGGAGGGAGTATATTGTTAGGGTGTTGGAAGAAAAATATCATTGTAGCAGTATTGCTGCCATACCAGCGTATCATGCGCTATACCGTGGCGCGCGACGGGAGCGTGAGGGTTAGGGTTTATCATAGCGGGCTGAGCGTTTCACCGGGGGCCCTCTGTTTTCACAGGCATGGACCGTGTATCAGAATATGTACAATTATTATGCCAAGACATGTAAAAGTAAATAAGGAAAGGAAGAGAATTTCCGCCAGGCGTAACTCTGATTCCCCCGGCTCCTGCGGAAGACGACGACAGCCTCCTCATAGCCTGCAAACAGGGCGAAACGGTCAAATCATTGCAACTCTCTTTTACTTATTATATTAGATAGAAGAAGATGCCGGTATTGCTTAGTCAAACGTGTCGAGAAACTAGCTACATGGAAAGGGTTCGGCGAGTCAGCTAGATGACAAAGTTAGCTACGTTGCAACCCCCTGGACCTCTTCTTCCTTATCCATCAATCAACAAGGCAGATGCTACTTTGTTCATTCATTTTGCTTGCCAGTTTGTCTTTCTTTATTGTGCACAATGAACACAAATGGCAAGGATCAGAAATTCAGTCTCTTTCTACCTACAAGCAATATCCTTTTGCTTATAGCGACGGCCTGCCCTAGCTGCAATGGCAGGCTTGGTATAAAGAACTCGTCATCACTTGTTAATGTATTGAAAAGTGTGGGTGCTGCAGCTTAGGCATTTAATTGGAAGGGTTAGGATATGCTAAATATGTGAAGACTGAAAACTTTCAGAACTAATTTGGCACTAGAAAATGATATGCAAGCAATCAGAAATCAGATGATGCAAGAATGTGCACCTCCTTCAGGAGAGCGGACATAGTCACAGTATATGAGAGGAATTCCGTGTCTTGAACATCAGGATTTACCTTAAGGTGGAAAACAACTTGCGAACTGCTTCAAAGATTTCATCTTCAGTTCCCGTTGCGTTTATCTGCATGGAGTTCAACAAGTACTCTTAGACACCCTAAAGGTCAAGTCTCGAAAATAAATAAGACATCCTACAGATCCTGAATACGAGTGATATACAGAATATGTTACTGTGTTATATCCCTGATATGTACCCCTTCTGAAGAGATTAGCAATCTCTTCCAAAATGAGTGAATTGCAGACACTCATCTAATATCAAATAAATAGGCAGATCTCTGATCTCACTCCCCTCCCCACACCATAGAAAAATGGTCTTACGGTTATATGAATTCAGAACATGAGGGAATCGCATCCTGGCTCTACCCCTCTGTCCTATGACTCCCAGGACATACTATCCTGCTATTTATACTTAGGTGACCCATATGTTTGAGGTTTCTGAAATATATATTGGCATTTGTACATGTTCAAGAGAATAAGCCAGGTATAGTTTAATGCTGCACCTTAAGAGACCTTTTTAATCAACTTCTAGAACAAAGGGTAGAGCTCTGTTTCCGTGTGAAGGAAATAAGAAAATGCATGTCAAAAAGTAAAGGTACGGTTCATAAAAGAAAGGTACAAGAAGTGCTCCTGTCCAGGACACTCTGCGTAAAATAAATAGATTAATTACCTTGTGTGCCTTTCCCCTTGAAGAGTAGTACTCAACAACAGGAAGATTCAAACTCTCGAACACTTTTAGACGCTTCTTGATTGTCTCAATGTTATCATCAACTCGTCCCTAAGACGCATACATGAGATAATCGAAAAAAACAGAAACAAATAGAGAGATCAATTTAATGTGATATATTTTATTTATTATTTTTAAAGGAAACTCCACTAGAGCATTAATGAATCTCCCATTATGATATGCACGAGCTACACTGATGAGATTAGTGTTTCTTCTCTTCAATTTAAATGACATATGAAGAAGAAAGAGCTACACTGATGAGATTAGTGTTTCTTCTCTTCAATTTAGATGACATATGAAGAAGAAAATCATTTGTGGCAATCCACAAGGAATATCCTTTAGGAATGTTAATATTTCATGTTAGTTAAGAGAGAGGGAGTAATAAGAAGATAATTGTCAAAGCCGAAAGTAACGGCTGGGAAATAAAATCTTAGAAAAACACATATCAAGTAAGTTCCGAATAAGAATTGAAAAATGTACAGTACTTATATAGTGTATAAATAGCACAATTTACTCCAGAGATAGTACAAAGACCAACCTGGTTACGGCTTAGGAGACGTTTAACCATCTCATCCTCAGGACAGTCAAAGAAAAGCACAAGGTCTGGTTCAGTTCCAGTCTGAAATTTATTAGTCAACATATCAGAACAGGACCATGCAATCTACATTTATCTGACTAACAATTATTGAGTGGACAACAATGAAACATATCTTAGTTGGTATGCCAGTGTCTTCTTATTGCCCGACCACAGAACACACATTTTCTTTGATATAAATGCTTGTATTAGTTGTTGAGATGCAACCATACATCCACCATAGTGGGGCTAACATAACTGTGGACTACTGCATAAAACCTAAAAGTGCATCACTCTAGAGCAGGACATAGTTATTGATTTGCTACTAAAAAAAATACATACATAAGAAACTGCTGATTGCATACCGTACACTGGCAGTTTTGGGCCAGCATATTGGCATAAAAAATGTAAAGACAAGTGTGTATACACAAATGTTACAGTCACAAGAGCTACAAAACTTGAAGATTCACCTGTTATCAGCCTTCCCGAAAACTGAACAGAAACTGTTGAACATCATGGACTTATCCATCTCATCACATACTATTTCAATTAATAGAAAGTTCTGGACCAGTAATGCAAGCCAAACAGAAAACTTACTATTTTTTCAAAGGCAATTCTGTTTTCCTCACACCTTGGGAAACCATCAATAAGAACCCTTTTAGCAGAGCTTGATTCAATTGCTTTTCTGACAAGCTCAACAGTTATCTCTGATGGAACAATCCTCCCTTCCCTTATTATCTCTAGGATCCACTCCCTGGCAAATGCCATGGCACTGACATATCAATTGACCGAACCATGCATGTGCGTGTGGGTCATTATAAGGCTATATCAGAGGATTGAACGGAAAGAGGTATTACCCATGATCAGTGCCCGAAGATATTTCATTGCGCAGAAGGTCACCAGCACTCACATGAGAAAATCCAAAATCCGAAGCGATCCTACTACATTGCGTTCCTTTCCCACTCCCAGGTCCCCCTACATGCAGGATCTTGATTAGATCATGTGAACATTTGAAATTTGAGCGCCACAACACAATCCAACTTGAAACAGCACTTATTGTCATGGGAGGGAAGGGATCCACAGTTTACTCTACACAGGATATGCATGGAATTTATAAATGTGAAACCAACCCTGCAACATTCTGGGAGTAAAAGCAGGGAAGAATTACCTAAGACGAAAGCGATGAACGGCCTGTCACCATCGCTTCCCTACAGAATGAACAGACGGCACATCGCCAAATTATTCACAAGAACTCTGCAAGATTTGTCACAAATAATAAGAATGCAGGCTTGGGAACGAACGTACAGCTAGGGACGTGAAGAGCCTGAGCAGATTCGGGGCCGGCGGTTTCTGCGAAGAGAACAGTCAGGCGGATGAGCATCTAGGAGCGAGAGGAACGTATTGACCCCCAATGGAGCGAGAGAGGCGAGCACGCCAGATCCGGTCCGGCCACGTTGTGCGCGCGTGCGAGGCGTTCGACGAAATGCGCAGGAGGAAAAGGAAAGGGGAACCGTGGGGTTACCTCGGCGTGGGTGGGGAGGAGGAGGTGGTGCTGCTGGTGGTGGCAGGAGGAAGCGACGGCGGAGGAGCACGGGGATCGGAGGAGAAGGGAGCTCAGCCGCCGCCTCAGCATCCCGACGCCGATCGCTCCCGCCTTGCTTGCCGTGCAGGGCAGGACAGAGGAGAAGCAAGGGGGGCTCGCCGTTCACCCCAGCCGCGGGAGGGGCCGAACGGCCGAGGTCGGCGGAGGGAGGGGCGGCGGCGAGCGGCCGTCGACTTGGCGTGGCGGGGAGCGGGGCCGGGACGGGGAGAGTTCGTCGTTTCTTTTCCTTTTCGGAGCTGCTTCTAATCGATGAAAGTGAAAAAAAAATGCCTTTTCCGCTTCGCGTGTCAGGCAGCGTGGAATATCTTGTGCTTTTAGCAAGGGGAAGCATGATGAATTGTCAAAAGCATAAATTGTTAGTATTTTTTATGGGTTGCGATAACTGCCACACGTGTGGCATGGATACGAACCCGCCCACACGCCTCGTGTGGCGTGAACAGGAACCCGCCCGCACGACCGCGTCCGGGCGCGCAATTGCACAGCCCGCACGTCCGGTGTGTGGCAACCCCGTCCGCACTGCTCCATCCGGGCCACACGACCCGCTGCCCGCACGACCCAGCCGTTCCCGTCCTCGCTCGATCGCCTCTCTCGACTGCCGCCATCGTCCCCCACCTCTCAAACACCTACCTCCGTCGCCGGCCTTCTCTGGTTGCCATGGAAACCAAAGCAGATTCGTAGGGCAAACCCACCGCAAACCACACCCCAACCCTCCCCAGCCCCAGCCCCCCACTCCAATCCAGCCCTTCAGAGACGATCAGCTAAAATCAGGTGAAAAATCTCCCGATCTCATCCTTCTCATCCTTCAGGCTGAAAATCTCCCCGATCTTGTACTGGATCCATGCTATAGGGGGCTGGCAACACCAGTAGTTCTGAGATCCAGTAGTTTTGTGATCTACGTGTTGATATTAACTTAAGTTCCTAGTTTGATTGACGCAAGTAGTTGGGTAGGCAAATGGATGAGTAGGAATCCCTGAAAAAAGGAGATGAAGGACAATTTTGGAATAAAGGGGGTGGGAAAAATTAATTGCCACTTGTGTACAACGATAGTTGCCACCTCTCGTTGTCAGTAGCTGCCACCTAGTTGACCTGTTGCTTGCCATCCCTATCTTCTCTGTGCAAGCAGCAGAAGAATACAATTCTTGTGGATTATTGATGCGTTCTTGATCATGCAGTGATTGAGAACATATTGGAAAGAAGCGAGCCACGGAAAGAATGAATCACGAAGATGGAGCTAATACTTGGGTTCTCAAAGGCCAGAAACGCCCCCTTGGGATGCATCAGAGTACAGTCAACTCATCTCTGCAGGGCCTTTGCTGCCACTACTAGAACAGTATACATGCATTGGTATGATGCGTGATAACAAAAATAAGAGAACAGTTGCCATCTTCGTAACGATGAAGATGACATTCTACTTATGTCATGCACTTTCATTTTTTCACAGGTTCTTATGACCAAAACACTCTCAGGGGCCCCCATGGCAAGTTCAGTTACAAGGCGCTAACACTAACAAATGTACGGGCAGCCAACTTCAACTAGCTAATGTGGCTAATCAAGGTAATGCATACGAAAAAAGAGCACATACTGGTGTGGACATGAAAAATGAACATGCAAAAAAATGGCAAAAGGACTCACGAGTTATCACGGGTGAAAAATGCAGAGCCTTCATGCAGCACGTGGCATCAGGCAGCACCCATGTACCTGCCATCGACGTCATACACAGGTGAGTCCATAAAAAGTGAAGTTGCGGATGCTCAATTAGCAGAAGGAACATGGTTGACAATTACACTTGCCATGACTGGACATCTACAATTGCCATGGTTAAATAACTGCAGTTGTCATCCCTGGACAAATGCTGTTGCCATCCATGGACAACTGCAGTTTCCATGGAGGAAGAACTGCAGTTGCCATGCTAGTGTAACTGCAGTTGCCATGCCATGACAACTTCAGTTGCCATGGAGGAACAACTGTAGTTGCCATACGAGTGCAACTACAGTTGCCAAGCCAGGAAAACTGCAGTTGCCACATCAGGGGCAACTAGAGTTTCCGTGCTAGCACAAACTGCATTTTCCATGAATTGACCAACCACTACTATGCTTACAGGTTATTACGGTGGTGGTAACCGGGCAAACGTCTCGTGGCAAGATTCACAAATTGCAGGTGGAGCACGTCATTTTGGTGTCACAGACCACACAAGATGGTCACATGCAGCACAACAAGGTAAAGAAAAAAACTGAACCACAAAACAGCACTACATTTGTTTTGGTGGCAAAAAAAGCACGTGCCGAAAAAAAGAATTGAAGCAGTGATGGTGGACAAGAACGAAGCATAAAACACTGAAAAAGTGGTTGCGTGCAAATGAGTCATGTATTGTCTTTGAAAAATTGCCAACTGCTAAAAGCATGTACGCATCACTAATGGTTGAACACATTTCGCCTAGTGAGATCAATCTTATAATGCAGTAGTTTTGTTGCGAGAACACAGTGGTTGCCATTTGTTGGTTGCAGTGTTTGCCATGAATGCAGGACTGCAGCTGCCATGCATATAGAACCCAAGTTTTCCTACTAAAAAAAGGAGCGTGTTGTCGTGCATTGGCAGACATTGGTTGCCATGTTTGTTGAACTGTACCTGCCATGAATGGACAGCTACATTTGCCACACATGTCCACGCGCGAACTGACATCTTGATGTTCGAATGATGTAATGCCAAATCACTCGATGTTAATGTCATCTGTTGCGATAAACATGTTATTCAAACAAAAAAATCTTACTCTCGTACCTGTTTTTTCCATTACAGGGCCTACAACTACACTGAACAGCGGCACGGGCACATCTACTGCGGGAAGCTCTGAGCGCACAGAAGACGCGTTCCCCCAGCCAGCAAACAATCATGCCGCAAATAATGCCGAGTCAGTGTCAGAAATGGCAATCATTCCAGCAATTCCCACAACCACCCCTTTGAACGCAAGCACTGGCAACATTCAAATCGATGAAACTGCTGCCGATACTGAAGTGAATGATGAAACTGACGACGAGGCACAAGGGGATGAAGATGATGGGCAACCAGATATCATGGTACCTCTGCCACCATACGTTGGGCAAAGATTTGAATCGTTTGAAGAAGCAAAGGAATTCTACCAGACATATGCAAAGTTTCATGGGTTTGCCGTCAACACCGAATACCATAGAAAAATTAAGAAAACTAATGAGTACAACAGAGGTGAGATGTGGTGCCACAAGGTACGAAGGAACAAGAAAGGGAAAGGTGTTGCGCCTGTCGTTCCGAAACGAAAGAGAGGGATCATTCTCAAGACGGGTTGCCCTGTCCGGTGTAAGCTAAACATAGATGGAACACAATATGTGGTCACTGAGTATTTTGACGAGCACAACCACAAACTCATAAAGAAGTTTGATCTGGTCAAATTTCTGACCGCCCACAGAGGGTTCACCCCAGTCGAAAGGCAATTCGTAAAGCTGCTACATGATTGTAACATCGGTCCATCAAGAATGGTCCAGATACTATCACTCATCCAGCAAAAAGGGGAAACTGAGTAGCATGCCGTACATACCAGCTGACGTCACAAACCTACAGGCCAAGTACCATAGAGAGAGCAAG
|
5
|
+
>2BS_5163353 11974 190831 503566-,...,5145698-
|
6
|
+
ATGTAGTGGTGGTGTGTGAGCGACATTTGAATAGTTTCTGTAATATATGTGTGGATGTGAACCTACTTAGGCGTGACAGCAGATATGTTTTTTATATTTATCATTATTACTGTGGTTTCATCGTTTGTATCACCCGTTTGCTGTTTTGAATGCATCACGATGTTTTAAAACATGGCAAATGTAGTTCATCAGACATGGTTAGCGAAAGTCATCGTCATTGTTCATTTGGACATTTTGCTTCTCCTATTTCATCACTAACTTCACCGGCTAGCATGGTAGGTTGATCATGGAGCCACAACCTTTGATGCGGTTTATGCACATTACGCTTTTTCTAACTTGTTTCCCATATATTGCACACAACACAATATGTGTCACTAAACCGCGTCGATTTTGTCATATAAATATATGCGATGCAGAGTCATTACAAATACCATGGCATATTTTCAGTACAGCTAACATGGCAGATCCAGTACAAACAACACGGCAGATCCAGCATAATTAACATGGCAGATCCAGCATAACTAACATGGCAAATCCAGTACAACTAACATGGCAGATCCAGTGCAACTAGCATTGCATATTTTTCAGTATAAAATAGTATGGCATATTTTTAGTACAAAATAGCATGGCATATTTTTAGTATAAAATAGCATGGCAGATTAACTACATATAACATGGCAGATTAAGTACCCATACCATGGCAAATTAAGTACCCATAACATGGCAGATTAAGTACCAACAATATGGCAACTACATTTACCCATTCAATGCATTCTCCTTCAACTTCTGAAGCCCCTCTAGAGTCATTATCCCAAATCAAAAAAGTTCACAGCATATAGGGTACAAAACAAATGTCCACAATGACCATGTCACAGTGCCCCAACTTTTGCTTACGGATTGCCCGTCCCTTTCTTCGTTTTCTTGTGTTTTGCTTGAATCTCCAATCCCGATTTTTACCTTATCTCTCTTGGACGACCCTTTGTGATGGAACGGGGTGGGTTCCTGACCTGGGTTTGTGTGCTTGCTGTTCCAGATCCTATCTCAGAGTTTTCAAATGATGGCCCCATGGATGAAGGCACACTTGATGTGCGGGGGAACCGGTGTAAGGCTTCCTCAGCTTTCCTCTTCTTGATCTCATCAAGCTCTCTTTTCAGGGCCTTCCTGTGTTTTTCTGCGACTCTCGTTGTCTCATCACTCTTGCACGCTTCATCAATTAGCTCAGCATAGTTCTTTGTCAACACAACATGCCTCACGGCTTCCATGGTTGCCTCAGGTCTCTCGTCATGCACAGCCAGAACTGCATTTGTTGTCTGCGGCGCAAACGCGTCGTCAGCGTCCCAAGTCCATCGCCACCTTATGAAATGGCGGGGCATGCGTGTCACAGCGTTCTCCATTACTTTCAGTATGTGACAACACACAATGTCGTCCCGTTCAAACTTGCAGCATTGGCAGTAGTATTGCCTTGTTCGATTGAGGCTTTCACGAAGTAGTTCCTTCCTTTGTCCGGGTCTTCAGGTTCTGAATCCGACATGCCCAAAATAGAACACACCTTGAACGTATGTTCGTCCGCCTGGAAAGCCGTGAACATGCTGGCACGCTTTATTTCTTCCTTGAATCTGCAAGTTTTGTGTGTTTTCTATTAAACTATCGTGTGATCTTTTTTTGTAGCATCTTATGTTGTCATGGAAATAGAAATAGATTTTTGTTTGAACATGGCAAACATAGTATACTAAACATGGCAAACATAGTGCACTAAACATGGCAAACATAGTACACTGAACATGGCAACTGCAGTAAACTATACAAGGCAACTGTATTGCATTTTCAACTGACCATTGTCATTTCCACACCAACACTCCTCACTGGAAGCCCTTTGCATAAAACATGGCAACTGAATTTTTATTGAACATGGCATCTACAGTTGAGTAAACATGGCAACTGCATTTTTCAACAAACATGGAAGTTTTGCATTTTTAGAAAACATGGCAACTGCATTTCATCAAATGTGTCTAGAATATAACGTTTTTCAGTTGACATTGGCATTTGCATACCAACATGCCCCAATGGCAGTACAGTGCATTAAACATGGCAACTGCACTTCATTAAACATGACAAACAAATTTTTCATTAAACATGGCAACTGCAATTGAGTAAGCATGGCAAACAGTATTTCATTACACATGGCAACTGCATATCATGGCAACTGCATTGCACCCTATAAGGCACCTACTGCCTTAGTGCTTTTTTTGCAAATAAGACTGTAATGCAACTGACTTACTTGTTAAAGATCTTGTTTGTGTATATCTTGCTCATTTGCCTCTCCATCGGTAAATACGTTAGCAATTTTGGCTGCTTTAGCGCGGTGGTAGCTTCTTGCTGCAGCTCAGATCCCAGAATTTTTTGTTGCAAAGCTGTGTACTGCTTGACAAACTGTAGCAATGAGTTGCCAGGGCTCACGTACCGCTTCAAAACAGCATTGAACCCCTCGCTGCACTGCGTAGTCTGCAGAAAGGGAAAGAAGCACTGCATGAAGTAGACTGGCACCCAGTACATTCGCTTCTCCCACAGGTTAGCAAGCATCTTGTTGTCTTGGACTTGATATGTTTCAATCATGGCCATCCAGCTCCTTTCAAACTCCTCCACCGTCAAGTTGTGGTCCATGCACAGCTCGAACGCCTTGTGGAGCTCTGGACGGTCAGCAAAGAACGGTCCTAGCGTCTCTTCAGCCCTCTTTATAATGTGCCACCTGCAGTGCCTGTGCACTGCCAACGGAAATACCTCCTATATGCCTGCACGCATGCTGAAATCCTGGTCTGTTATTATGTTCATCGGAGCAAGTCCATCCATGCACTCCAAGAAGGTCTTGAACAACCAAACGTACCCATCCGTGTCTTCGTTCCGAACGAGCCCGCAGCCGAACTGCAATGACTGATTGTGGTTATTTATTCCTATGAACGGAGCGCATGGCATCTTGTACATATTAGTCAGATACATCGCGTCGAATGAAATGCAATCTCGAAAATGTTTGTAGGCTCTCCTTGCAGCACCATCCACCCAATACATGTTCCTGACACGGTCCTCATCGTCCAATCTTATCCTGTAGAAGAAATCTGGATCTTCCTTCGCTTTCTCATCGAAGTAGGCCATTGTGACCTCTATGTCAGCAAGCTTGCTCTCTCTATGGTACTTGGCCTGTAGGTTTGTGACGTCAGCTGGTATGTACGGCATGCTACTCAGTTTCCCCTTTTTGCTGGATGAGTGATAGTATCTGGACCATTCTTGATGGACCGATGTTACAATCATGTAGCAGCTTTACGAATTGCCTTTCGACTGGGGTGAACCCTCTGTGGGCGGTCAGAAATTTGACCAGATCAAACTTCTTTATGAGTTTGTGGTTGTGCTCGTCAAAATACTCAGTGACCACATATTGTGTTCCATCTATGTTTAGCTTACACCGGACAGGGCAACCCGTCTTGAGAATGATCCCTCTCTTTCGTTTCGGAACGACAGGCGCAACACCTTTCCCTTTCTTGTTCCTTCGTACCTTGTGGCACCACATCTCACCTCTGTTGTACTCATTAGTTTTCTTAATTTTTCTATGGTATTCGGTGTTGACGGCAAACCCATGAAACTTTGCATATGTCTGGTAGAATTCCTTTGCTTCTGCAAACGATTCAAATCTTTGCCCAACATATGGTGGCTGAGGTACCATGATATCTGGTTGCCCATCATCTTCATCCCCTTATGCCTCGTCGTCAGTTTCATCATTCATTTCAGTATCGGCAGCAGTTTCATCGATTCAAAGGGGTGGCTGTGGGAATTGCTGGAATGATTGCCATTTCTGACACTGACTCGGCATTATTTGCGGCATGATTGTCTGCTGGCTGGGGGAACGCGTCTTCTGTGCGCTCAGAGCTTCCCGCAGTAGATGTGCCCGCGCCGCTGTTCACTGTAGTTGTAGGCCCTGTAATGGAAAAAACAGGTACGGGAGTAAGATTTTTTGTTTGAATAACATGTTTATCGCAACGGATGACATTAACGTCGAGTGATTTGGCATTACATCATTCGAATAGCAAGATGTCAGTTTGCGCGTGGACATGTGTAGCAAATGTAGCTGTCTAGTCATGGCAGTTACAGTTCAACAAACATGGCAACCACTGTTTGCCAATGCACGACAACAAGCTCCTTTTTTTAGTACGAAGACTTGGGTTCTATATGCATGGCAGCTGCAGTCCTGCATTCATGCAAACACTGCTACCAACAAATGGCAATCACTGTGTTCTAGCAACAAAACTACTGCATTATAAGATTGATCTCACTAGGCGAAATGTGTTCAACCATTAGTGATGCATACATGCTTTTAGCAGTTGGCAATTTTTCAAAGACAATACATGACTCATTTTGCACGCAACCACTTTTCAGTGTTTTATGCTTCGTTCTTGTCCACCATCACTGCTTCAATTCTTTTTTTGGCACGTGCTTTTTTTTGCCACCAAAACAAATGTAGTGCTGTTTTGTGGTTCAGTTTTTTTCCTTACCTTGTTGTGCTGCATGTGACCATCTTGTGTGGTCTGTGACACCAAAATGACGTGCTCCACCTGCAATTTGTGAATCTTGCCACGAGACGTTTGCCCGGTTACCACCACTGTAATAACGTGTAAGCATAGTAGTGGTTGGTCAATTCATGGCAAATGCAGTTTGTGCTAGCACGGGAACTGTAGTTGCCCCTGATGTGGCAACTGCAATTTTCCTGGCATGGCAACTGTAGTTGCATTGGTATGGCAACTGCAGTTGTTCCTCCATGGCAACTACAATTGTCATGGCATAACAACTGCAGTTACACTGGCATGGCAACTGCAGTTCTTCCTCCGTGGCAACTGCGGTTGTCCATAGATGGCAACAACAGTTGTCCAGGGATGACAACTGCAGTTATTTAACCATGTCAATTGTAGATGTCCAGTCATGGAAAGTGCAATTGTCAACCATGCTCCTTCTGCTAATTGAGCATCCGCAACTTCACTTTTTTATGGACTCACCTGTGTATGACGTCGATGGCAGGTACATGGGTGCTGCCTGATGCCACGTGCTGCATGAAGGCTCTGCATTTTTCACCCCTGATAACTCGTGAGTCCTTTTGCCATTTTTTTGCATGTTCATTTTTCATGTCCACACCAATATGTGCTCTTTTTTCGTATGCATTACCTTGATTAGCCATATTAGCTAGTTGAAGTTGGCTACCCGTACATTTGTCAGTGTTAGCGCCTTGTGACTGAACTTGCCACGGGGGCCCCCTGAGAGTGTTTTGGTCATAAGAACCTGCGAAAAAAATGACAATGCATGACATAAGTAGAATGTCATCTTCATCGTTACGAAGATGGCAACTGTTCTCTTCTTTTTGTTATCACGCGTCATACCAATGTCTGCATATTGTTCTAGTAGTGGCAGCAACGGCCCTGCAGAGATGAGTTGACTGTACTCTGATGCATCCCAAGGGGGCGTTTCTGGCCTTTGAGAACCCCAAGTATCAGCGCCATCTTTGTGATTCATTCTTTCCGTGTCTCACTTCTTTCCAATATGTTCTCAATCACTGCATGATCAAGAACGCATCAACAATCCACAAGAATTGTATTCTTCTGCTGCTTGCAGATAGGGATGGCAAGCAACAGGTCAACTAGGTGGCAGCTATTGACAACGAAAGGTGGCAACTGTCGTTGTACACAAGTGGCAATTAATTTTTCCCACCCCCTTTATTCCAAAATTGTCCTTCCTCTCCTTTTTTAGGGATTCCTACTCATCCATTTGCCTACCCAACTACTTGTGTCAATCAAACTAGGAACTTAAGTTAATCTCAACACGTAGATCACAAAACTACTGGATCTCAGAACTACTGGTGTTGCCACCCCCTATAGCATGGATCCAGTACAAGATCGGGGAGATTTTCAGCCTGAAGGATGAGAAGGATGAGATCGGGAGATTTTTCACCTGATTTTAGCTGATCGTCTCTGAAGGGCTGGATTGGAGTGGGGGGCTGGGGCTGGGGAGGGTTGGGGTGTGGTTTGCGGTGGGTTTGCCCTACGAATCTGCTTTGGTTTCCATGGCAACCAGAGAAGGCCGGCGACGGAGGTAGGTGTTTGAGAGGTGGGGGACGATGGCGGCAGTCGAGAGAGGCGATCGAGCGAGGACGGGAACGGCTGGGTCGTGCGGGCAGCGGGTCGTGTGGCCCGGATGGAGCAGTGCGGACGGGGTTGCCACACACCGGACGTGCGGGCTGTGCAATTGCGCGCCCGGACGCGGTCGTGCGGGCGGGTTCCTGTTCACGCCACACGAGGCGTGTGGGCGGGTTCGTATCCATGCCACACGTGTGGCAGTTATCGCAACCCATAAAAAATACTAACAATTTATGCTTTTGACAATTCATCATGCTTCCCCTTGCTAAAAGCACAAGATATTCCACGCTGCCTGACACGCGAAGCGGAAAAGGCATTTTTTTTTCACTTTCATCGATTAGAAGCAGCTCCGAAAAGGAAAAGAAACGACGAACTCTCCCCGTCCCGGCCCCGCTCCCCGCCACGCCAAGTCGACGGCCGCTCGCCGCCGCCCCTCCCTCCGCCGACCTCGGCCGTTCGGCCCCTCCCGCGGCTGGGGTGAACGGCGAGCCCCCCTTGCTTCTCCTCTGTCCTGCCCTGCACGGCAAGCAAGGCGGGAGCGATCGGCGTCGGGATGCTGAGGCGGCGGCTGAGCTCCCTTCTCCTCCGATCCCCGTGCTCCTCCGCCGTCGCTTCCTCCTGCCACCACCAGCAGCACCACCTCCTCCTCCCCACCCACGCCGAGGTAACCCCACGGTTCCCCTTTCCTTTTCCTCCTGCGCATTTCGTCGAACGCCTCGCACGCGCGCACAACGTGGCCGGACCGGATCTGGCGTGCTCGCCTCTCTCGCTCCATTGGGGGTCAATACGTTCCTCTCGCTCCTAGATGCTCATCCGCCTGACTGTTCTCTTCGCAGAAACCGCCGGCCCCGAATCTGCTCAGGCTCTTCACGTCCCTAGCTGTACGTTCGTTCCCAAGCCTGCATTCTTATTATTTGTGACAAATCTTGCAGAGTTCTTGTGAATAATTTGGCGATGTGCCGTCTGTTCATTCTGTAGGGAAGCGATGGTGACAGGCCGTTCATCGCTTTCGTCTTAGGTAATTCTTCCCTGCTTTTACTCCCAGAATGTTGCAGGGTTGGTTTCACATTTATAAATTCCATGCATATCCTGTGTAGAGTAAACTGTGGATCCCTTCCCTCCCATGACAATAAGTGCTGTTTCAAGTTGGATTGTGTTGTGGCGCTCAAATTTCAAATGTTCACATGATCTAATCAAGATCCTGCATGTAGGGGGACCTGGGAGTGGGAAAGGAACGCAATGTAGTAGGATCGCTTCGGATTTTGGATTTTCTCATGTGAGTGCTGGTGACCTTCTGCGCAATGAAATATCTTCGGGCACTGATCATGGGTAATACCTCTTTCCGTTCAATCCTCTGATATAGCCTTATAATGACCCACACGCACATGCATGGTTCGGTCAATTGATATGTCAGTGCCATGGCATTTGCCAGGGAGTGGATCCTAGAGATAATAAGGGAAGGGAGGATTGTTCCATCAGAGATAACTGTTGAGCTTGTCAGAAAAGCAATTGAATCAAGCTCTGCTAAAAGGGTTCTTATTGATGGTTTCCCAAGGTGTGAGGAAAACAGAATTGCCTTTGAAAAAATAGTAAGTTTTCTGTTTGGCTTGCATTACTGGTCCAGAACTTTCTATTAATTGAAATAGTATGTGATGAGATGGATAAGTCCATGATGTTCAACAGTTTCTGTTCAGTTTTCGGGAAGGCTGATAACAGGTGAATCTTCAAGTTTTGTAGCTCTTGTGACTGTAACATTTGTGTATACACACTTGTCTTTACATTTTTTATGCCAATATGCTGGCCCAAAACTGCCAGTGTACGGTATGCAATCAGCAGTTTCTTATGTATGTATTTTTTTTAGTAGCAAATCAATAACTATGTCCTGCTCTAGAGTGATGCACTTTTAGGTTTTATGCAGTAGTCCACAGTTATGTTAGCCCCACTATGGTGGATGTATGGTTGCATCTCAACAACTAATACAAGCATTTATATCAAAGAAAATGTGTGTTCTGTGGTCGGGCAATAAGAAGACACTGGCATACCAACTAAGATATGTTTCATTGTTGTCCACTCAATAATTGTTAGTCAGATAAATGTAGATTGCATGGTCCTGTTCTGATATGTTGACTAATAAATTTCAGACTGGAACTGAACCAGACCTTGTGCTTTTCTTTGACTGTCCTGAGGATGAGATGGTTAAACGTCTCCTAAGCCGTAACCAGGTTGGTCTTTGTACTATCTCTGGAGTAAATTGTGCTATTTATACACTATATAAGTACTGTACATTTTTCAATTCTTATTCGGAACTTACTTGATATGTGTTTTTCTAAGATTTTATTTCCCAGCCGTTACTTTCGGCTTTGACAATTATCTTCTTATTACTCCCTCTCTCTTAACTAACATGAAATATTAACATTCCTAAAGGATATTCCTTGTGGATTGCCACAAATGATTTTCTTCTTCATATGTCATCTAAATTGAAGAGAAGAAACACTAATCTCATCAGTGTAGCTCTTTCTTCTTCATATGTCATTTAAATTGAAGAGAAGAAACACTAATCTCATCAGTGTAGCTCGTGCATATCATAATGGGAGATTCATTAATGCTCTAGTGGAGTTTCCTTTAAAAATAATAAATAAAATATATCACATTAAATTGATCTCTCTATTTGTTTCTGTTTTTTTCGATTATCTCATGTATGCGTCTTAGGGACGAGTTGATGATAACATTGAGACAATCAAGAAGCGTCTAAAAGTGTTCGAGAGTTTGAATCTTCCTGTTGTTGAGTACTACTCTTCAAGGGGAAAGGCACACAAGGTAATTAATCTATTTATTTTACGCAGAGTGTCCTGGACAGGAGCACTTCTTGTACCTTTCTTTTATGAACCGTACCTTTACTTTTTGACATGCATTTTCTTATTTCCTTCACACGGAAACAGAGCTCTACCCTTTGTTCTAGAAGTTGATTAAAAAGGTCTCTTAAGGTGCAGCATTAAACTATACCTGGCTTATTCTCTTGAACATGTACAAATGCCAATATATATTTCAGAAACCTCAAACATATGGGTCACCTAAGTATAAATAGCAGGATAGTATGTCCTGGGAGTCATAGGACAGAGGGGTAGAGCCAGGATGCGATTCCCTCATGTTCTGAATTCATATAACCGTAAGACCATTTTTCTATGGTGTGGGGAGGGGAGTGAGATCAGAGATCTGCCTATTTATTTGATATTAGATGAGTGTCTGCAATTCACTCATTTTGGAAGAGATTGCTAATCTCTTCAGAAGGGGTACATATCAGGGATATAACACAGTAACATATTCTGTATATCACTCGTATTCAGGATCTGTAGGATGTCTTATTTATTTTCGAGACTTGACCTTTAGGGTGTCTAAGAGTACTTGTTGAACTCCATGCAGATAAACGCAACGGGAACTGAAGATGAAATCTTTGAAGCAGTTCGCAAGTTGTTTTCCACCTTAAGGTAAATCCTGATGTTCAAGACACGGAATTCCTCTCATATACTGTGACTATGTCCGCTCTCCTGAAGGAGGTGCACATTCTTGCATCATCTGATTTCTGATTGCTTGCATATCATTTTCTAGTGCCAAATTAGTTCTGAAAGTTTTCAGTCTTCACATATTTAGCATATCCTAACCCTTCCAATTAAATGCCTAAGCTGCAGCACCCACACTTTTCAATACATTAACAAGTGATGACGAGTTCTTTATACCAAGCCTGCCATTGCAGCTAGGGCAGGCCGTCGCTATAAGCAAAAGGATATTGCTTGTAGGTAGAAAGAGACTGAATTTCTGATCCTTGCCATTTGTGTTCATTGTGCACAATAAAGAAAGACAAACTGGCAAGCAAAATGAATGAACAAAGTAGCATCTGCCTTGTTGATTGATGGATAAGGAAGAAGAGGTCCAGGGGGTTGCAACGTAGCTAACTTTGTCATCTAGCTGACTCGCCGAACCCTTTCCATGTAGCTAGTTTCTCGACACGTTTGACTAAGCAATACCGGCATCTTCTTCTATCTAATATAATAAGTAAAAGAGAGTTGCAATGATTTGACCGTTTCGCCCTGTTTGCAGGCTATGAGGAGGCTGTCGTCGTCTTCCGCAGGAGCCGGGGGAATCAGAGTTACGCCTGGCGGAAATTCTCTTCCTTTCCTTATTTACTTTTACATGTCTTGGCATAATAATTGTACATATTCTGATACACGGTCCATGCCTGTGAAAACAGAGGGCCCCCGGTGAAACGCTCAGCCCGCTATGATAAACCCTAACCCTCACGCTCCCGTCGCGCGCCACGGTATAGCGCATGATACGCTGGTATGGCAGCAATACTGCTACAATGATATTTTTCTTCCAACACCCTAACAATATACTCCCTCCGTCTGGAAATACTTGTCATCAAAATGGGACATATTTTAGTTCTAGATACATCTCTTTTATCTATTTTGATGACAAGTATTTTTGGACGGAGGGAGTATATGCCTGCCCTGTTGTTGTTTTTTTTACTAGAATATGATATTGTTGTATGTGCGCCGTGCTTGTCTGGTGACAATCTGCTATTTGTATACGAGGTGAGAACTGCAGGCGTTCGATAAACTAGTGATTTGACTCAAGGGAAAAGAGAGTGTACGTTTGGATTTAGTTAGTGTGAACCGCCGGCGTGTTTTTGTCAGTTCTTGACCGGCCGTTTAGGTTTAGCTGATGCGATCTTGAAAGAAAAAAAAAATGTGGAGCGCCGGCGCTTGCACGCCAAGTCTAATCTAAAAACTCCCCGTTTCCAAAAGATTGTCTGTCTGTGCACTCCACGGGAGGAGAAAGCTCTGCTACTATTGACTCATTTTTCTTGCCTGCATCATCGCCTTGCAAGCCATGGAGCGCGGGCACCTGGCACTTGCTACAGAGCCGGCGTGTCGTCATCGTCATCGTCGCGCTGACAGGTGGACTTCTCGGAGGGCCTCTTTGGATCCTAGGAATGGAACACACGAATTCGATTGGAATATATGCAAAGGCAGCACGCATGATTGCGAGTGGAACACGCGAAATTGATATGAACACACACGCGAAGGCAACATAGATGATCGCGAAACGCGGAAAAATCGCAGCGTTATTATTATTTTTTTGGCTAGGTACATAATCCGGGCATGTGAAAACTGTCTCGATCGCACGCACATAATCCGGGGAATGAAGAGGTTGAGGTGAACCTGAAATTTGTGTTGGAATCTAGGCATGGAGAGAAAGATGATTCGTCACGAGCAACGTCGGCATCGACTGCACCAAGCTGCCATGACTCCATGGAGTGAGGTCATGTGAAGACTTTTGGGGAGCAAAACTCCAACCGGGCATGTCATAGCCAGCCAAAAATTTCTCATCTATATCTTTCCATCCCCCCAAAAGAGGGGGAGTTGAAGTGCTTGTCTCCGAAAAAAGATGGCGTTTTGCACATCCACACAATCAAGAAAACATAAAATGTGCCCCCGCGGAAAAAAGACACACATAAATGTGACTATTATTTTCTCCCGCAATATATAATTACATTATAGTCCCTTCGTCCCAGAATAAGTGTCTTGAGCTTAGTACAAATTTATACTAGAGCTAGTACAAAGTTGAGTCACTTATTTTGAGACGGAGGGAGTAGAACCTAGCAGAATGTATGAATGTACATTTTAGGCAAATCTATAGACAGAGATCTTCACACTTGTAATGAAGACTTTTGAAAGGGAAAAATGGGTTCAAACTTGACCAAAACTACATCCGGAACTTCATGAATGTGTGAATTGGAGGCAGTGGCG
|
7
|
+
>2DS_5334799 7226 338754 1380402+,...,2126614-
|
8
|
+
GCGACACCTGGACCAGCGGCGAGTTGTACCGCAGGCCGGGGCCGGGCGGCGCCTCCGTCCCCTGCTCCTGCTCCTGCGGGGACCCGGCCTCCGGCAGCTCCGTCGACACGGCCATTTCGTCACTCTGAACGGGCGGGCCGGCGGAGGGGAGTGAGGACGGCAGGTGGGTGGGTGGAGACAAATCGGCGGAGACGAAGGCGAGGTGGAAGACGATCGGCGGAGGTGGCGGTATTTATAGATGGGATCTTGGTGGCTCCTCTGTTTGATTCTGTTGCCAAGGGGGAGAAAGAGACGGCGACATTGAGGACGAGCAGAGGGCGACATTTGGAGCATCATTAGTCAGTGATGATTGCATTTAATCAGTATATTTGGGAATTTAATTACTGCCCATTTATCAGTTCAGATATGTACATCGTCTTTAATGTGGATATTTATTTGAGGGAGTAATAAGCAAAGATTGTTACAGAGTTTTTCCTTTTTTTTTTGAAATTTTCGAAAATATGTTCGACGTGGCAAAAAAAAAGACCGTAATAGCTGGCGAACGTTCGTTGTGAGGGGTGGTATTGCGAACATTTTTGCTGACAGTTTTTTCAGAGACACATGACAATTTTTTTAGATACGCATGACGGTTTCTGGAAAGAAGACTGCGGCAAAAACAAGCAGAATTAGCCATCTCCTACCACCTAAAAATGCCTTAAGAAATTGTTCGCTTGTCACCCTCCTCCCAGGAAACGTTCGCTTGTTAGTATTTTTGAAAGAAAAGGGCCCCACTCAAATTTTGGATCTTTTTGTTTCCATTCATTCGTTTTGGAGCGGTGTAGGGGAGACAGACGAATTTTGAAGATAGAATTTGTGACATTTGGTTTGGAGCATCATCATCATCGCCAATTGGAATGCACACTGAATTAAATTTTGCGAGATATGGCATTCTATTTTCATAAGTTCTTATTACAAATCATCATGATCTCCATAACACATACGCGAGTTGGAAGGAGATTTGTGCACACACGAGATGAGCCGACAGAGATGAGAAGGGGTGAAAGATAGGAGAGTCGAATATGCCGATTTGAAGAATCACCAAACTACATATAGTAAACAATTATTAATTTTCATGAGGGATATTCCGGCATTTTAACAATGGTTGCTAGGTACTAAGGATTTCTTTTCTGTGGGACTTGGCAGTCCTTCCACTCAATTTGTTCAACACACAAGTGGGTATATATATGGCAGATACGGTATAATATAAGACACAAAGGCACAGAAGAGGATTTGTGGCTCTCGGGTGCCACGCACCCCTATATGAATATAGCATTAAAAACATATTGCAAATTTTAAAAAATTCTAAAATTTTGGAATATGAACCTGGGTGCCTGTTGTACACTCGTCTTCAACTTCGTGGGGAATGAGTGCCCGTGTTCATCTCAGTAAAAAGGACAAAAAAAATCGTATGTATAGAAAAAGATAATTGGATGTAATGTATGTCAGACCGGAACTCCAGTGCCATGGATACCACGGGCAACCATTCCCAGCGAAAATGAAACAAGTGTGCAATCAATGGTCACCTAGGTTTGATATCCTAAAATATCTGATTTTTGTGAAATTTTCTGATATTTTCTTAATGCTAGTTTCATATAGGGGTACGTGACACTCGGGTGCTCCAATGCATTTCCCACAAGGGCACACGACCTTATCCCTGTCAAAAGACTCATCCTACATTGATAAATATGACTTGGCAGTGGGGCCAGCAACAGCAAGATGAGCGTCCCAACATCCCCTTGTTCTTTCTTTGGAGGATCGATGTTCCTCCATCCAACATTGCTTGGTTGATTGCCACAAGGACGCAGGGCTGAGATTCTCGGTCCTGGGATTTTGGAATTTTGCTCGCAACTTGCAGCGCAGCTGCGTCCCTGTCCTTCCTAGTGAATCACCTTCGCCCGTTGTTTGGGGCATAGGACAAATACACCCAGCTAATCATAGATTCATAGGGAGGGGGTCATAATCCTGGCTAGCTTTCACCGTTAGCGGCAGCTAGCTGGTTAATCATGCAGGCTCACACGAGGCTAGCGGCCCCCTAGTAGAGTCCAAAATGGACCTTTCCTCTGTTTTACCATCTCCGTCTGAGAAAGTGACAAGATGTGGCATCTTAGTAGTTGTTGTTAACTGCAGAATGCTCCCACCATGAAACCTTTGATTTTCATTCTAAAAGGACACCTTCGATTTTCCGAAAAAATGACATTGCGATATTTCCTCCCTTTGCGAAAGTGGGGGCGATTTGGGGATGTGTTCGTAGGATCAGCAGAGTGCGAGTGTCCTCACTACTTAGTGGACTAGGAACACCAATTACCATTCAGCATGGATGGTGGGCTATCTCAAAAACAATGAACAAAGACTAGGAACACCAATTTTTAGGAGTGTCAGCTAGCTGGTTAATCATGCAGGCCAACACGAGGTTAGGAGCTCCCTAGAGTCTAGAATAGATCATTTTCTCCGTTTCACTACCTTTATCTCACAACACAAAACATTTTTAAGAGTCGTAATGATCGGAAGACGAATGCCACACATGACACCCTTGTTTTTCCTTGCGAAATACACATGACATTCGAGCCCCCCTCCAACTCACACATTAATGAAGTTCCAGGTATAGTTTTGGTCAAGTTTGAACCCATTTTTCCCTTTCAAAAGTCTTCATTACACGTGTAAAGATCAGTATCTATAGATTGTCTAAAATATACTCGTAAAGAAATATAAGAGCGTTACAGAGGGAGCACATTCATATATTCTGTTAGGTTTTATAGTTATATATCGTGGTAGAAAGTAATAGTCACATTTATGTGTGTGTTTTTTTGTTGCGGGGGCACATTTATGTTTTCTTGATTGTGTGGATGTGCAAAACACCATCTTTTTTGGAGACAAACACTTCAACTTCCCCTCTTTTTGGGGGATGGAAAGATATAAATGAGAAATTTTTGGCTGGCTATGACATGCCCGGATGAAGGCCCCGTTGGAGTTTTGCTCCTCAAAAGTCTTCACATGACCTCACGCCATGGACTCATGGTAGCTTGGTCCAGTCGATGCCGACGTTGCTCATGATGAATCATCTTTTTCTCCATGCCTAGATTCCAACACAAATTTCAGGTTCACCTCAACCTCTTCATTCCCCGGATTATGTGCGTGCGATCGAGACAGTTTTCACAAAAAAATGTTGCGATATTTCCGCGTATTGCCTTTGCATATATTCCAATCGAATTCATGGGTTCCTTTCCTATGATCCAAGGAGGCCCTCAGGGAAGTCCACCTGTCAGCGCGACGACGACGACGATGATGCGCCGGCTCTGTAGCAAGTGCCAGGTGTCCACGCTCCATGGCTTGCAAGGCGATGATGCAGGCAAGATAAATGAATAGCACAAGTCAACAGTAGCAGAGCTTTCTCCTCCCGTGGAGTGCATAGACAAACAATCTTTTGGAGATGGTGAGTTTTCAGATTAGACTTCGCGTGCAAGCGCCGGCGCTCCACACTTTTGTTTCAAGATCGCATCAGCTACTAAACGGCCGGTCAACAACTGACAAAAACACGCCGGCAGTTCACATTAACTAAATCCAAACGTACACTGCTTTTTTCCTTCAGTCAAATCACTAGTTTATCGGACGCCTGCAGTTCTCACCTCTTATCTGAGAATAGATATATACAAATAGCAAATCGTCACCAGGCAAGCACGGCGCACATACAATTATATCATATTCTGGTAAGAAAAATATCGTCGTAGCAGTTTTGCTGCTGCCATACCAGCGTGTCATGGGTTATACCGTGGCGCACGACGAGAGCGTGAGGGTAAGGGTTTATCATAGCAGGCTGGGCGTTTCACCAGTGGCCCTCTGTTTTCACAGGCATAGACCGTGTATCAGAATATGTACAATTATTGTGCTAAGAGATGTAAAAGTAAAAGGAAAGAAAAGAGTATTTCCGCCAGGCGCAATTCTAATTCCCTCAGGCTCCTGCGGAAGACGACGACAGCCTCCTCATAGCCTGCAAACAGGGCGAAACGGTCAAATGATTGCAACTCTCTTTTGTACAGGTAGTGCATCTTCATTAGAAGAAGATGCTGGTATTGCTTAGTCAAACGTGTCAAGAAACTAGCTACAGGCGAGGGTTCGGCGACTCAGCAAGATGACAAAGTTCGCAACGTAGCATCCTCCCGGACCTCTTCTCCCTTATCCATCAATCAACAAGACAAATGCTACTCTGCTCATTTTGCTTGTCAGTTTGTCTTTCTTTATTGTGCGCAGTGAACACAAATGGCGAAGATTCAGAAATTCAATCCCTTGCCACCTACGTACAAGCAATACCCTTTTGCTTATAAATGTCCTACCCTGGCTGCAACGGCAGGCTTAGTATAAAAGAACTTGCCGTCACTTGTTAATGTATTGAAAAGTGTGGGTGCTGCAACTTGGGCATTTAATTGGAAGGGTTGGGATATGCTAAATATGTGAGGACTGAAAAGCTTTCAGAACTTCAGTAATTGGGACTAGAAAATGATATGCAAGCAATCAGAAATCAGATAATGCAAGAATGTGCACCTCCTTCAGGAGAGCGGACATAGTCACAGAATATGAGAGGAGTCTCGTGTCTTAAGCATCAGGATTTACCTTAAGGAGGAAAACAACTTGCGAACTGCTTCAAAGATTTCATCTTCAGTTCCCGTTGCGTTTATCTGCATGGAGATCAACAAGTAGTCTTAGACACCCTAAAGGTCAAGTCTCGAAAATAAATAAGACATCCTACAGATCCTGAATATGAGTGATATACAGAATATGTTACTATGTTATATCCCTGATATGTACCCCTTCTGAAGAGATTAGCAATCTCTTCCAAGATGAGTGAATTACAGACACTCATCTAATATCAAATAAATAGGCAGATCTCTGATCTCACTCCCCTCCCCACAACATAGAAAAATGGTCTTACGGTTATATGAATTCAGAACACGAGGGAATCGCATCCTGGCTCTGCCTCTCTGTCCTATGATTCCCTGGAAACACTATCCTGCTATTTATACATTGGTAACCCATATGTTTGATGTTTCTGAAATATATATTGGCATTTGTAAAAGTTCAAGAAAATAAGCCAGGTATAGTTTAATGCTGCACATTAAGAAGCCTTTTAAATCAACTTCTAGAATAAAGGGTAGAGCTCTGTTTCCGTGTAAAGGAAATAGGAAAATGCACGTCAAAAAAGTAAAGGTACGGTTCATAAAAGAAAGGTACAAGAAGTGCTCCTGTCCAGGACACTCTGCGTAAAATAAATAGATTAATTACCTTGTGTGCCTTTCCCCTTGAAGAGTAGTACTCAACAACAGGAAGATTCAAACTCTCGAACACTTTTAGACGCTTCTTGATTGTCTCAATGTTATCATCAACTCGTCCCTAAGACGCATGCATGAGATAATCGAAAAAACAGAAACAAATAGAGAGATCAATTTAATGTGATATATTTTATTATTATTTTTAAAGGAAACTCCACTAGAGCATTAATCAACCTCCCATTATGATATGCACGAACTACACTGATGAGATTAGTGTTTCTTCTCTTCAATTTAAATGACATATGAAGAAGAAAATCATTTGTGGCAAACCACAAGGACTATCCTTTAGGAATGCTATATTTCATGTTAGTTAAGAGAGAGGGAGTAATAAGAAGATGATTGTCAAAGCCGAAAGTAACGGCTGGGAAATTAAGTCTTAGAAAAACACATATCGAGTAAGTTTCGAATAAGCATTGGGAAATGTACAATACTTATATAGTGTATATATATCTAGCACAATTTACTCCAGAGATAGTACAACGACCAACCTGGTTACGGCTTAGGAGACGTTTAACCATCTCATCCTCAGGACAGTCAAAGAAAAGCACAAGGTCTGGTTCAGTTCCAGTCTGAAATTTATTCATCAACATATCAGAACAGGACCATGCAATCTACATTTATCTGACTAGCAATTATTGAGCGGACAACAATGAAACATATCTTAGTTGGTATGCCAGTGTCTTCTTATTGCTTGACCACAGCACACACATTTTCTTTGATATAAATGCTTGTAGTAGTTGTTGAGTTGCAACCATACATCCACCATAGTGGGGCTAACATTAACTGTGGACTACTGCATAAAACCTAAAAGTGCATCACTCTAGAGCAGGACATAGTTATTGATTTGCTACTAAAAAAATACATGCATAAGAAACTGCTGATTGCATACTGTACACTGCCAGTTTTGGGCCAGCATATCGACGTAAAAAAAAAGTAAAGACAAGTGTGCATACACAAATGGTTACAGCCAAGAGCGCTACAAAACTTCAAGATTCGCCTGTTATTAGCCTTCCAAAAATTGAACAGAAACTGGTGAACATCATGGACTTATCCATCTCATCACATACCATTTCAATTAATAGAAAGTTCTGGACCAGTAATGCAAGCCAAACAGAGAACTTACTATTTTTTCAAAGGCGATTCTGTTTTCCTCACACCTTGGAAAACCATCGATAAGAACCCGTTTAGCAGTGCTTGATTCAATTGCTTTTCTGACCAGTTCAACGGTTATCTCTGATGGAACAATCCTCCCTTCCCTTATTATCTCCAGGATCCACTCCCTGGCAAATGCCATGAAACTGACAAATCAACTCACCGAACCATGCATGTGCGTGCGCGTCATTATAAGGTTATCAGAGGATTGAACGGAAAGAAGTATTACCCTTGATCAGTGCCAGCAGATATTTCATTCCGCAGAAGGTCACCAGCACTCACATGAGAAAATCCAAAATCCGAAGCGATCCTACTACATTGCGTTCCTTTCCCACTCCCAGGTCCCCCTACATGCAGGATCTTGATTAGTCGTGTGAACAACTGAAATTTGAGCGCCACAACACAATCCAACTTGAAACAGCACTGATTATCATTGATAGAAGTGATCCTCAATTTACTCTACACAGGTTATGCATGGAGTATGTAAATGTGAAACCAACCCTGCATTATTGGGGGAGTGCAGGTAGATTTTTTTTTTACCTAAGACGAAAGCGATTATAAATGTGAAACAGCACTGATTATCATTGAGGCAAGGGTTCCTCAGTTTACTCTACACAGATATGCATGGAATTTATAAATGCAAAACCAATGCTGCAAAATTACCTAAGACAAAAGCGATGAACGGCCTGTCACCATCGGTTCCCTACAGAATGA
|
@@ -0,0 +1,6 @@
|
|
1
|
+
Command line: [exonerate --showalignment no --bestn 10 --showvulgar no --model affine:local --ryo RESULT:\t%S\t%pi\t%ql\t%tl\t%g\t%V\n /Users/ramirezr/Dropbox/code/bioruby-polyploid-tools/test/data/BS00068396_51.fa /Users/ramirezr/Dropbox/code/bioruby-polyploid-tools/test/data/BS00068396_51_contigs.fa]
|
2
|
+
Hostname: [n87398.nbi.ac.uk]
|
3
|
+
RESULT: BS00068396_51 0 101 + 2AS_5222932 3015 2914 - 501 99.01 101 6364 . M 101 101
|
4
|
+
RESULT: BS00068396_51 0 101 + 2DS_5334799 6812 6913 + 501 99.01 101 7226 . M 101 101
|
5
|
+
RESULT: BS00068396_51 0 101 + 2BS_5245544 4549 4651 + 462 96.04 101 8836 . M 69 69 G 0 1 M 32 32
|
6
|
+
RESULT: BS00068396_51 0 101 + 2BS_5163353 7425 7323 - 462 96.04 101 11974 . M 69 69 G 0 1 M 32 32
|
@@ -0,0 +1,14 @@
|
|
1
|
+
2AS_5222932
|
2
|
+
2BS_5245544
|
3
|
+
2BS_5163353
|
4
|
+
2DS_5334799
|
5
|
+
|
6
|
+
|
7
|
+
for g in 2AS_5222932 2BS_5245544 2BS_5163353 2DS_5334799;
|
8
|
+
|
9
|
+
|
10
|
+
grep -A1 2AS_5222932 /Users/ramirezr/Documents/PHD/201305_Databases/iwgcs/2A*.fa >> contigs_2.fa
|
11
|
+
grep -A1 2BS_5245544 /Users/ramirezr/Documents/PHD/201305_Databases/iwgcs/2B*.fa >> contigs_2.fa
|
12
|
+
grep -A1 2BS_5163353 /Users/ramirezr/Documents/PHD/201305_Databases/iwgcs/2B*.fa >> contigs_2.fa
|
13
|
+
grep -A1 2DS_5334799 /Users/ramirezr/Documents/PHD/201305_Databases/iwgcs/2D*.fa >> contigs_2.fa
|
14
|
+
grep -A1 2DS_5334799 /Users/ramirezr/Documents/PHD/201305_Databases/iwgcs/2D*.fa >> contigs_2.fa
|
Binary file
|
Binary file
|
Binary file
|
Binary file
|
Binary file
|
Binary file
|
Binary file
|
Binary file
|
@@ -0,0 +1,16 @@
|
|
1
|
+
>gnl|UG|Ta#S22380157 FGAS065873 Triticum aestivum FGAS: Library 2 Gate 3 Triticum aestivum cDNA, mRNA sequence /gb=CV771480 /gi=55676420 /ug=Ta.5437 /len=859
|
2
|
+
acgcttgaccttaggcctatttaggtgacactatagaacaagtttgtacaaaaaagcagg
|
3
|
+
ctggtaccggtccggaattcccgggatatcgtcgacCCACGCGTCCGCGTCCGACCAGCA
|
4
|
+
CAAACAAGACTGTACTCTGGGCTCCTCTGACTCCGTGTCTTGCTAAAATATCTTTGGTCG
|
5
|
+
ACTCGTTGCGAGGTTGATCAGATGGCGGAGGAAGCGAAGCAGGATGTGGCGCCACCCGCG
|
6
|
+
CCGGAGCCGACCGAGGACGTCGCGGACGAGAAGGTGGCGGTTCCGTCGCCGGAGGAGTCT
|
7
|
+
AAGGCCCTCGTTGTCGCCGAGAATGACGCTGAGAAGCCTGCAGCTACAGGGGGCTCACAC
|
8
|
+
GAACGAGATGCTCTGCTCACGAGGGTCGCGACCGAGAAGAGGATTTCGCTGATCAAGGCA
|
9
|
+
TGGGAGGAGAACGAGAAGGCCAAAGCCGAGAACAAGGCCGTGAAGTTGCTGGCGGACATC
|
10
|
+
ACCTCGTGGGAGAACTCCAAGGCCGCGGAACTGGAAGCCGAGCTCAAGAAGATGCAAGAG
|
11
|
+
CAGCTGGAGAAGAAGAAGGCGCGCTGCGTGGAGAAGCTCAAGAACAGCGCCGCGACGGTG
|
12
|
+
CACAAAGAGGCGGAANGAGAAGCGTGCCGCGGCggaagcgcggcacggcgaggagatcgt
|
13
|
+
cgcggcggaggagaccGCCGCCAAGTACCGCGCCAAGGGTGAAGCGCCGAAGAAGCTGCT
|
14
|
+
CTTCGGCAGAAGATAGATATCGCTTCATCTTCAGCTTCTCTCTGTTTGACCGNTTGCATG
|
15
|
+
TCTCCTGCCCATGGCATCACTTGTGTATTTATCTTTGGGGGNGATCTTAGTTTGTATGGT
|
16
|
+
ATCATCAAATGCGTCGTGA
|
@@ -0,0 +1 @@
|
|
1
|
+
gnl|UG|Ta#S22380157 859 158 60 61
|
@@ -0,0 +1 @@
|
|
1
|
+
BS00183592,3A,TTGATCTCATAGAAGATGTAACAGCTCAGTTGCCTCCCAGCAAGGTGCCCCGTCTTCACTGTTTGGTGTGGCGAAAGTTATCATCTGTTGATTTTCTAGC[A/C]AAGTGTCCTGCTGTTGAGCCTTCACCAAGTCTCCTAAAAGGCATCCGGCAATCTTTGGTCTCACATCTCACTCTGGTATTAGGGAAAGATGACCTGGCAG
|
@@ -0,0 +1,6 @@
|
|
1
|
+
>IWGSC_CSS_3AS_scaff_3293289
|
2
|
+
atagttatgtcataaaaatattaaatacataatatgaatgtatttcaaaatttatgtaatctcactttatatgcaaagttccaaaaaaagctatgacagatgattaatgaaccgtgggtgcacttcacacgggtcacannnnnnnnnnnnnnnnnnnnnnnnnnnnnctttttaccgcttaccttgtataagaaaaggttgtcttcttcttcgccgcttccatccatccatcctcgggagtcagggcctgagctaacctcttggagcttttactccccgagctgccctcccccgttccaagagcaaatcagccgcagaggggagcggccgcagagcgagtcaaccaggtgagctgctccgcgattcccctgagagaatatctactactagctgatttgctccgccctgcccggttgggttggaccccccatgttcatcctgcatctaccgagcgacgctcgattcgagcagcatccgctgcacgtttttggatctcgtcgggccttgttctggcgtggggacggaagattgttctggcggtgccacaagaacgagtcttgctgaatctggtgctcattgactttctaggaattggggttagcaagagggattttccgtgcattctagccttctgaattctgatgcacaccttcatagctgttgggacatctccctgttttgtgctctgggtccccaaattaactgtccggcaaacttgtgagcaggcatggcggtggcgagctcgacgaggacgtcgaggaggcttgcgtttgtgctactcgtgctggccttttcggccgcgctcgcagagagcagagatgcatatatgaggagcgcagatcgatatgcctgcatactgagtaagctgtggattcattgcaagattgaatgctcgtattggttgttcttgtttgatatgcaggagtttctgttcatgtctcaatggtatccatgctgataatgttaggtaggtcgaccgaatgcagcagttgtgtgccaccaatccacttttctggaaaatacttgctagaaaaccatctgaaacatgtgatgcttgctactgtataatatactgtatgtatgaagaactgccacttaatttttgaccaaaatactaatggagtactatctttcaatttggttttgtgctgattccagaaataattctgcgtctatttttctacttcatctgggttgcacagacacatacaagtatgaattgtgttgttgatgcctgtgttgtacaaactatgaattgcgtacttgctgcttatcagatatctttagtttagcagtagtcacaattatggcatgttattctgcttccattcactgattctgaaagtccgaattatcacttatggtttctcttctcataaagaaaactcagatccagatgtgataaattatgctcaccacatcttcagctaaacaaccctctacttgcaaaaattgaagttccacctgtttttgagtgttcgccttatgataagactgcaacttaatttttgaccagacgactgtctttttattttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttctgctttgatctaagttgcaaagacacataatagtatgaatcatgttgctgatgcctgtattgtaagaaactaagaattgctttacttgctgcctgttagatatatttagctggaagtagtcacaattagggcatgtaaattctgcttccatttactaatcctgtaagtctgaactctcacttatagctactcataaagataactgtgatcctgctgtgacaaattatgctgaccacatcttcagctaaacacccctctccttgtaaaaactcaagttccacagcgttgagtgctgagcttatgagttatgatcaaactgctttgctgtatccatttcagcccaggaaaacttccctcctgcaagcagagggtcaggattaacttcggcaaacggaaagctatgtgtactatgtgagcaatactcaaccgaagctctggtctacctgcgacaaaacgaaacccaaaccgagattctcagtgtcctccaccacacgtgtgcaagcctgggtcctctaagacagcaggtatggctaaatggcaatgcctgccatgcatagcataattgtaatctcagtaaactgattggctttcatcttctcgcagtgcatcacgctggtcgactactacattcccgctttcttcttggaggtttctgtggttaaacctgaagagctctgtgagtcggcgcacctgtgcccaaagggggcggcgactctgtcgtccacacgaggggatgcctgtggtctatgccatcatgttcttgttgaagttcttatgatgcttaaggatcccaacaccaaggtaactgtcatgttctcaatcgcatttaccgatcttctgtgcaatggttggcttgtactttgcacatggctaatgctttcttgtgcatgtcgcgattttttgcagctggagatagtcgggcttcttttcaaaacatgcagcaaggcgaagaactatgaaccgcaggtgagttaagttcggaaacagtcgtagttaccggaacacagacgaatctgcctgcagttaaatgatagcatatcacaggatcacctagttctcatggtcttttgtacaacagaaataactgggaaaccctgacctgttctaatgcttctgaaagttagctgttcaatactacagtgcttttctccaatacaccagctccagtaatatacagtatataccagttcaggatcattagaactttagatgttgctaactatttgtgtaattggctaactttgtaacaactgaatggtacgcataaaccttttggcgtttttgacgctttgcaaggtatctagtttcttgttaaaaaaacggtatctagttttgttctgctcacgaatctgcttttctttttatctctcagtgcaagaggcttgtccttgactacatcccactgattctgctgaagacccaggagttccttgagacgacggacatctgctttgcgacacatgcctgtaaaacaggcatgcaagcaaccattcctctctccgccgctttgtgaagaacaaatatgtaggaatcatacaggggcaaagaagcctgtaaatgttcctcctgtattttgctcaagcactgccaagctatgaaacttggttgtgcgagggtttgtacaatttgagctctgctctctgaagtttatgcaacaagccagcagctgtactatcattcatttgctcagcacataatcgtctcagagcagcatactgcgcaattgtgaaaagttacatcacattgtatctactggctatatatccagtcatgatggtactattattcagtgttcatgtcttgctttggcattagcaagtgaagcaatttttattgggaaggtaatcctggattttgatatgaaaagattgatgagattgggttgttaacatacttggttccagaaatacacatttcaattcacattaaattctccagagttagaagtgaactgaagaaactgaaagtgttagatttaataatccattcaagggcagaatagcaccagctgcccttaattctccagagttgggagtaactaccgaatgttagatttagttgtccattcaaggccagacagaatgtagctaccagagaacatttcacaaaaacacaggcttaacttgataattgagttgtcaaatgacactcacaggaaggatcacaaacaatggtgcagatccaagtcttgatgatttagaccctagtagaaggaaatatacacatcacagcaagccattactacaactagagtttcacacatccatgtgcttatgacactgtcttctcattgcatcctctcctttctgagcctctcaagctccttcaccatctgccagtgctccagggaaaggctcttctcaccaaagcttgaggctgttatctgagccattgtcagccatctgcacatcagcgcaaaaaaagttagtcggatggaggttcataaactaccatgttatcgcaaacgcaacatgttagacgcccaagattacctgctaagttcagtgcaacccaagctcctgtcgttgcgcatggcactgaccatttcatcttggatcgtctacagttaagatgcaaacattgagcaaactcagtacatgtttaaacataatctgaaattctgaatctgctaaataagtggagtgagggatagttacctggtaaatctcaggttcagaagactgagggagagacctcactgtggccaagtaccacctccagctctcaagctcctcagaagttgcattcaccgcagaaacagtggatggacgaaaaggcactaccaagtctgaaggcaggatgtttgattttccctcagaaagagtaagtagctgcacatcggtcgccatctccagcttgtagtactcaaaatcatactcaacctgtaagtacaacagacaaaaattgtaaatgaaaaattacccagcaatgataatttggaggttcatgcttgaagtatcatgccatcactaattaactttagatgtgcacagttggttacacctaagtgcttgtgaattttgattcaaattttcattcacttttggatcatgtagtcactgacctaaaatggttgatactgacatgtatgctgacaaaagacttacacaccactctaatgggatgagcatagaatcttaaagaaatataatgcaatacattcttatatgtatgatgtcttaaagacaaattcagagagaattattaccatctgtgactccatcaagttcttaagcagcaccgtattctcaacacctttagatgccaaagatccagattgcaagagagtttcatcaaatgtcaagtgagagccttgaggtagctgcagaactcctgtaaccaacctacaccaaattttatgaagagcagtttataggttagctcccaataaaggcaaggagttattaacatacttatggaatttgattggacaaacaaagggaaactgaacaggacttaccttcctgacttgttgtcctttctaggttgaagtgtggctgtgttgagatactcaattgacagaggaatagcttgtgaatacggcattagtccctggatcaaagcatttagctgttttccaaaaatggaaacactttctctgttaaatccagtgaaattcaaggagagcctgccaacagtgaccacatccaccctagttcgtagctgtagagatattgaaaaggcaatgaaatcattaaaccaacatacaaaatatctggcaaaaagcatgaaaagaaagcaatgtgcgataagacatactctggatagaagatgcagcagtaaacagttagctgccaggtcatctttccctaataccagagtgagatgtgagaccaaagattgccggatgccttttaggagacttggtgaaggctgcataatcaaaacaaaaatatgtcaataaagcaatggtcaagagatgtgtatattagcacgaggaaatgaattacatggtaaaaccagcaagtccatttctgagttcaaagttataaattcacctcaacagcaggacactttgctagaaaatcaacagatgataactttcgccacaccaaacagtgaagacggggcacctatgcaaacagttttagaggtcagggcaaatattaaaatatgcatagaaattcaagtttctgtgtcacgcatgaaatcaagcactatgcaccctataataggcataccttgctgggaggcaactgagctgttacatcttctatgagatcaaacattatatcatccgaattatcattgggagcagcaagttctgggtcaaatgtgtatacccctatgaactcagcaacatcgtttagtttcacttgactttcaggcatatcatagatctgcagtgcatgaaagtctgtaagcaataggacttgcgagaacaggaagcacggcaaataaattagctaatgtacatttcatacaaaaaagttcaggtgccccaccttcactagacatgaaaaggagcttccaggaatatgatgatcattcccattcatctgtggcacgttttcacttgctggcatttctgctgaactagatgggatctggacgtcatcttccttctgagaaaaacaaatgcactttatgtcagataaccaaacccttcattctatatgacttcagattagcatgaaatggagcataattaactaaaacatgttactattcaattgatatggttccttattctattttatgattatgctaatctatatccggacaagtaatttaggctatcaaatgctagatgaacttcaaaccagaaacagatacacggtaaattatcatatggggaaataacaaagctcaagcatgaagttgcttgtagaaaactaagttcggttcttactggtttcttgctgcatgaagaactctcgccatttccattttccaaaacctgtagcaagcaatgcattagtgccaatggtagttactggacacagaaattgttaatagaatgcattactgtaacaacatgacaagagcttacatccatggcatcatcatctccatccctcttccttttctccctttgttcaggtgacaagcagtttgccatttggcgcaagtcaggcccaggggaagagtccagtgtccacgaattctgcccaggcacctgaaagaagccaatcacacagtcaagatggattccaccagccaatcacacaatgaactctaaaattgataaaatgaaaacaagtgcgcagggaagtagtaacatacaggcacacaatggaagagatggcgctcccagagatgcgagtcacacgggtgcggcatcgcgaacggtgagaaatctgtgaacttgttcgtcctccaggtagacccatccttcacaaacaatgttttatacaggcatgcaaaagaagcagtagccaaagcttgacggcagaatgtcagcagagtcatgtgggtaccttgaaagccccggcatagaactcgttcccgagcatgtcctgaaccatcccccggaaccggacgagggtgttgggtttgatcaatccgagattcgatgcatccaacaatggaacctggaaagggcaacacacagtgtaagaaatcccatttcacctggtgaaagacaattttgaaatctgctaacagtgcagtagggtctactaatacatacaaaaataaatccctttcccccaccataaatccgcaaacgcatttgctctcgagcattcttctactccttctattcattttgataccaatcattaccccctttttacagtgcggagcacggactgtgtacataagattatcaaattttgatgatttatttatctaggatgaggccgattaatctgtaacatgatagcctgatacatgggaaactggcagacgccaaccagatcgcgagtggataacctaatctcgtgcacacgacagggaaataaagccaagaacagagacgacgaggggtcgataccttgtcgaggccgccctgctcgaagaggaaggagcggaacacctcgc
|
3
|
+
>IWGSC_CSS_3DS_scaff_2586804
|
4
|
+
atggatgtaagctcttgtcatgtttgttacaataaagcattctcttaaaagtttcagtgtccagtaaccagcattggcatctgatgcattgcttgctacaggtctcagaaaatggaaatggcgagagttcttcatgcagcaagaaaccagtaagaaccaaacttagttttctaccatatagctttgtcatttccccatacgaaatggtcccataatctagtgtgtttctgtttcctgtttgaagttcatctagcttctgatagcctaaattacttgcctggatatagattagcataatcataaaataggatgagtaagcgtatcaattgattagtaacatgttttagttaattaaaatgtcccatttcatgctaatccgaagtcatgtagaatgaagggtttggttgtctgacataaagtgcatttgctttttctcagaaggaagatgacgtccagatcccatctagttcagccgagatgccagcaagtgaaaatgtgccacagatgaatgggaatgatcatcatattcctggaagctctttttcatgtctagtgaaggtggggcacctcaacttttttgtatgaaatgtacattagctaatttatttgccgtgcttcctgttcttgcaagtcctattgttacagacttttatgcactgcagatctatgatatgcctgaaagtcaagtcaaactaaatgatgttgctgagttcataggggtatacacatttgacccagaacttgctgctcccaatgataattcggatgatataatgtttgatctcatagaagatgtaacagctcagttgcctcccagcaaggtatgcctattgtagggtgcatagtgcttgatttcatgcgtgacatagaaacttgaatttctatgcatattttaatatttgccctaacctctagccttgaaactgtttgtataggtgccccgtcttcactgtttggtgtggcgaaaattatcatctgttgattttctagcaaagcatcctgctgttgaggtgaatttatgaccttgaactgaaaaatgggcctgttggtttaaccaatgtattcatttcctcctagtaacatacagaactcttaaccactgttttttttatcatgcagcctttgccaagtctactaaaaggcatccggcaatctttgctctcacatctcactctggtattagggaaagatgacctggcagctaactgtttactgctgcatcttctatccagagtatgtcttatcactgcacattgctttctttttgtgctttttgccagatattttgtatgttggtttaatgatttcattgccttttcaatatctctacagctacgaactagggtggatgtggtcaccgttggcaggctctccttgaatttcactggatttaacagagaaagtgtttccatttttggaaaacagctaaatactttgatccagggactaatgccatattcacaagctattcctctgtcaattgagtatctcaacacagccacacttcaacctagaaaggacaacaagtcaggaaggtaagtcctgttcagtttctttttgtttgttcaatcaaattccataagtatgcaactccttgcctttattgggagctaacctataaactgtgctcttcataaaatttggtgtaggttggttacaggagttctgcagctacctcaaggcgctcacttgacatttgatgaaactctcttgcaatctggatctttggcatctaaaggtgttgagaatactgtgctgcttaagaacttgatggagtcacagatggtaataattctccctgaatttgtatttaagacatgatacatataagaatgtattgcattatatttctacaagattctatgctcatcccatttgagtggtgtgtaagtcttttgtcagcatatgtatcagtatcaaccattttaggtcaatgactacatgatccaacagtgaatgaaaatttgaactcaaaattcacaagcacttaggtgtaaccaactgcgcacatctaaagtgaattagcgatggcatgatacttcaagcatgaacctctaaattatcattgctgggtaatttttcatttataaattttgtctgttgcacttacaggttgagtatgattttgagtactacaagctggagatggcgaccgatgtgcagctacttactctttccgagggaaaatccaacatcctgccttcagacctggtagtgccttttcgtccatccactgtttctgcggtgaatgcaacttctgaggaacttgagagctggaggtggtacttggccacagtgaggtctcttcctcagtcatctgaacctgagatttaccaggtaacgaacaaatccctccttccatttattatctactccctccgttcctaaatacttgtccgcattttaacaaatgactacatacagagtaaaatgagtgaatctacactctaaaatatgtctacata
|
5
|
+
>IWGSC_CSS_3B_scaff_10398983
|
6
|
+
cccccnnnnnnnnnacttctgttttggcttaccatgcatgcctgtggtgctgttgtaaaagtggatctcactccaaatggcagatctacctttgttgaagctaagatacaaaattgcaaattctgggcaggggatctcttgtattatttttcgcatgttcagctcccgatccgcggttgtaactttggtcgcaagacataaatatcaacacgtagtttacattctttttttgtacaagtgtccactgcatgatctgtggtgatctttttacctttcagtttgtggtataagatgcatttttctctctcttgggtctcatatgccagttgctaaagacaagacttgtttaggctaatcattgttgaagaaatgcatgccagtttttgtatcaaaatgatacgcacaaactttgcgagccaattttgttcgatcatgatgcctgacataaaataataaatatgattatgcttcttatcctacgataatggatggtgggaagctttctttttcattatctaaaacaaacaaattctttttgacaaagggtggattttattgacttaaaatgaagcatcaagttgatacaaacacgatgagaacacacccggcctctgcataactaagatgcacataggcagcaccaacacacacaataacccgctggcaaatagcaaagtcatataagaccaaatctatgcctaagcgaacaaatccgcgatcgacaaactacaacaatggctatatccataccaaccatctcatgacaccataaggacaacggggttcttcaacaacaacgccttcatgaagggagcgatgctcgagagaatctaaaacaaacaaatatatgttcttttcaagagaatctaagacaactgtttattgtttcttgtctcacaaaaccgaaatgttagnnnnnnnnnctggaggggtaaccgaaatgttagtcgtaaaaaacttggtacattaacaaaatgggcctcgggtcccatcaatggcaaaattgggcctgggtcggcccagtacacgcacccagcccacaaaaattggcgggaactggagggagaaacggcgggnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnccgcacaacctccccgccattgctcctgcnnnnnnnnnnnnnnnnnnnncaactccccaagaagagagagcgagatccactgccggagaaaggcagagaggatggtgggcccgcagtacgacctcgtcggcaaccccctgggcgcggtgcgcgccaccttcgagagggcgtcggcggcggagtccgggggccgcgacccggtggcggcgttccggtccaaggactggggcgccagcgaggtcttccgctccttcctcttcgagcagggcggcctcgacaaggtatcgacccctcgccgtctctgttcttgcctttatttccctctcgcatgccagtacgccgcacgtgattaggttatccactcgcggtctggtttggcgtctgccggtttcctttgcgtcagtctatcatgttatagattaatcggcctcatcatagatagataaatcatcaaattttgataatcttatgtacgcagtccgcactctgcactgtaaaaggggaaaagtgattagcaacaaaatgaatagaatgtagaagaatgcttgagacttgagagcaaatgcgtttacggatttatggcggggagtagggatttatttttgtatgtattaggagtagattctactgcactgttaggagatttcaaattgtctttcaccagatgaaacgagatttcttacactgtgtttgtcctttccaggttccattgttggatgcatcaaatctcggattgatcaaacccaacaccctcgtccggttccgggggatggttcaggacatgctcgggaacgagttctatgccggggctttcaaggtactactgacatgactctgctgatatgccgccgtcaagcttcggctagtgccttcttatgcttacctgtatgaacactgtttttgaaggatgggtctacctggaggacgaacaagttcacagatttctcgccatttgcgatgccgcacccgtgtgactcgcacctctgggagcgccatctcttccattgcgtgccggtatgttactgaatctcagagcatttgtttcccattttctgatcagttctagaaattatttgtacaaagggttggttagtgggattcacctgaatagtttgattggcttctttcaggtgcctggacagaattcgtggacactggagtcttcccctgggtctgacctgcgccaaatggcaagctgcttgtcacctgaacaaagggagaaaaggaagagggatggagatgatgatgccatggatgtaagctcttgtcatgtttgttacaataatgcactctcttgacaatttcagtgtccagtaaccagcattggcatctgatgcattgcttgctacaggtctcagaaaatggaaatggcgagagttcttcatgcagcaagaaaccagtaagaaccaaacttagtttcccataatctagtgtgtatctgtttctggttttaagttcatctagcatttgatagcctaagttacttgtctggatatagattagcataatcatagaatagaatgagtaagcatatcaattgattagtaacatgttttagttaattaaaatgccccatttcatgctaatccgaagtcatatagaatgaagggtttggttatctgacataacgtgcatttgctttttctcagaaggaagatgacgtccagatcccatctagttcagcagaaatgccagcaagtgaaaacctgccacagatgaatgggaatgatcatcatattcctggaagctccttttcatgtctagtgaaggtggggcgcctgaacttttttgtatgaaatgtacattagctaatttatttgctgtgcttcctgttcttgcaagtcctattgcttacagactttcatgcactgcagatctatgatatgcctgaaagtcaagtgaaactaaatgatgttgctgagttcataggggtatatacattcgacccagaacttgctgctcccaatgataattcggatgatataatgtttgatctcattgaagatgtaacagctcagttgcctcccagcaaggtatgcctattatagggtgcatagtgcttgatttcatgcgtgacacaggaacttgaatttctatgcatatattaatatttgccctaacctctagccttgaaactgtttgtataggtgccccgtcttcactgtttggtgtggcgaaaattatcatctgttgattttctagcaaagcatcctgctgttgaggtgaatttatgaccttgaactggaaaaacggcttgttggtttaaccaatgtattcatttcctcctagtaacatacagaacacttaaccactgnnnnnnnnatcatgcagccttcgccaagtctactaaaaggcatccggcaatctttgctctcacatctcactctggtattagggaaagatgacctggctgctaactgtttactgctgcatcttctatccagagtatgtcttatcacttcgcattgctttcttttcgtgctttttgctagacattttgtatgttggtttactgatttcattgccttttcaatatctctacagctacgaactagggtggatgtggtcactgttggcaggctctccttgaatttcactggatttaacagagaaagtgtttccatttttggaaaacagctaaatactttgatccagggactaatgccatattcacaagctattcctctgtcaattgagtatctcaacacagccacacttcaacctagaaaggataacaagtcaggaaggtatgtcctgttcagtttctttttgcttgtccaatcaaattccataagtatgtaactccttgcctttattgggagctagcctataaactgtgctcttcataaaatttggtgtaggctggttacaggagttctgcagctacctcaaggctctcacttgacatttgatgaaactctcttgcaatctggatctttggcatctaaaggtgttgagaatacggtgctgcttaagaacttgatggagtcacagatggtaataattgtccctgaatttgtatttaagacatgatacatataagatccaacagtgaatgaaaatgaaaatttgaatcaaaattcacaagcacttaggtgtaaccaactgcgcacatctaaagtgaattaatgatggcatgatacttcaagcatgaacctccaaattatcattgctgggtaattttcatttattaattttgtctgttgtacttacaggttgagtatgattttgagtactacaagctggagatggcgaccgatgtgcagctacttactctttctgagggaaaatcaaacattctgccttcagacttggtagtgccttttcgtccatcaactgtttctgcggtgaatgccacttcggaggaacttgagagctggaggtggtacttggccacagtgaggtctcttcctcagtcttctgaacctgagatttaccaggtaacaacaatcccttgttccactatctagcagattcagagctttcagatgtttgcgtgcatggtttacactgtactgagttgctcaatgtttgcatcttaactgtagacaatccaagatgaaatggtcagcgccatgcgcaacgacaggagcttgggttgcactgaacttagcaggtaatcttgggcgtctaacatgttgtgtttgcgataacattgaagtttatgaacctccatcccgctaactttctttgtgctgatgtgcagatggctgacaatggctcagattacagcctcaagctttggtgagaagagcctttccctggagcactggcagatggtgaaggagcttgagaggcttagaaaggagaggatgcaatgagaagacgtgtcatcagcacatggatgtgtgaaactctagttgtagtaatggcctgctgtgatgtgtatatttccttctactagggtctaaatcatcaaagacttggatctgcaccgttgtttgtgatccttcctgtgggtgtcatttgacaactcaattatcaagttaagcctctgtttttgtgaaatgtgctctggtaactatattctgtctggctttgaatggacaactaaatctagcattcgtagttactctggagaattaaggtcatctggtgctattctacccttgaatgactactaaatctagcacttgtagtttcttcagttcacttctaactatggagaatttaatgtgaattgaaatgtgtatttctggtaccaagaagtatgttagcaatccagtctcatcaatcttttcatatcaaaattcaggcttaccttccccataaaaatggcttcacttgctaatgccaaagcaagatatgaacactgaataataataccatcatgattggatacatagcagtagatacaatgtgatgttaactttcacaattctctgagacgattgtgcgctgagcaaatttatgatagtacagctgcaggcttgctgcataaacttcagagggcagagctcaaattgtacagacaaagcatcacacgacccgaagtttcatagcttggtagtgcttgagctaaacataggaagaacatttacaggcttctttgccgcgtatgattcctacacatttgttcttcacaaagcggcggatagaggaatggttgcttgcatgcctgttttacaggcatgtgtcgcaaagcagacatccgtcgtctcaaggaagttctgggtcttcaccagaatcagtgggatgtagtcaaggacaagcctcttgcactgagaaataaaaacaaaagcagactcgtgagcagaacaaaactagatagcctttttttaacaagaaactagatacttgcaaagcgtcaaaaacatcaaaaggtttatgtgttacattcagttgtcacaaagttagccaattacagaaatagttagcaacatctaaagttctaatgatcctgaactggtatatatatcactggaactggcatgctagagaaaagcactagtattgaaccgctaactttcagaagcattagaacaggtcagcgcttctcagttatttctgttgtatgaaagaccatgagaactaggtgatcctgtgatatgctatcgtttaattacaggcagattcgtctgtgttccggtatctacgactgtttctgaacttaactcacctgcggttcatagttctttgccttgctgcatgttttgaaaagaagcccgactatctccagctgcaaaaaaccgcgacacccacaaaaacacattagccatgtgcaaagtagaagccaaccattgcacaaaagatcgatgacggcgatcgagaagatggcagttaccttggtgttgggatccttaagcatggtaagaacttcaacaagaacatgatggcatagaccacaggcctcccctcgcgtggacgaccgagtcgccgccccctttgggcagaggtgcgctgactcacagagctcttcaggtttaaccacagaaacctccaagaagaaagcgggaatgtagtagtcaaccagcgtgatgcactgcaagaagatgaaagccagtcagtttagtgagattacaattatgctatgcatggcaggcattgccatttagccatacctgctgtcttagaggaccaagacttgcacacgtgtggtggagggcactgagaatctcggtctgggtttcgttttgtcgcaggtagaccagagcttcggttgagtactgctcacatagtacacacagctttccgtttgccgaagttaatcctgcccctctgcttgcaagagggaagctttcctgggctgaaatggatacagcagagcagtttgagcacaactcataaggtcagcactcaacactgtggaacttgagtttttacaaggagaggggtgtttagctgaagatgtggtgagcataatttgtcacagcaggatcacagttatctttatcactttatgagtagctataagtgagagttcagacttacagaatcagtaaatggaagcagaatttacatgccctaattgtgactacttccagctaaatgtatctaacaggcagcaagtaaagcaattcttagtttcttacaatacaggcatcagcaacgtgattcatactaccatgtgtcttttctacttagatcaaagcagaaaagtagatcacccgcnnnnnnnnngcagaaaagtagatgcaggattatttatggacagccttctggtaagtagatgcaggattatttagggacagtcttctgctcaaaaataaaaagacagtcttctggtcaaaaattaagttgcagttcttatcataaggtgaacactcaaaaacagtgggactttaattttcgcaaggagaggggtgtttggctgaagatgtggtgaacataatttatcacatttggatctgagttttctttgtgagaaaccataagtgataattcagactttcagaatcagtgaaaggaagcagaataacatgccctaattgtgactactgctagctaaagatatctaataagcagtgggtacacaattcatagtttgtacaacacaggcatcaacaacacaattcatacttctatgtgtctgtgcaactcagatgaaacagaaaaatagacgcagaattatttctggaatcagaacaaaaccaaatctaaagacagtagtatttcggtcaaaaattaagtggcagttcttcgtacatatattatagcaaagatcacagctttcagatggttttctagcaactattttccagaaaagtggaccggtggcacacaattgctgcacccggtcgatctacctagcattatcagcatggataccactgagacatgaacagaaactcttgcataagaaacaagaataaccaataccagcattcgatcttgtaatgaattcacaacttactcagtatgcaggcatatcgatttgcgctcctcatatatgcatctctgctctctgcgagcgcggccgaaaaggccagcacgagtagcacaaacgcaagcctcctcgtcgagctcgccatcgccatgcctgctcacaagtttgccagaacacagttaatttggagactcatgacacaaaacagggagatgtcccaacatcagaaggctagaatgcacgcagcagctaaccccaattcctaaaaagtcaacacatgcatatctgcatacacacgttctgagctccagattcagctagaattgttcttgtggcaccgccagagcaagcttccgtccccacgccggaacaaggcccgacgcgatccaaaaacgtgcagcggatgctgcttgaatcgagcctcgctcggtagatgcaggatgaacatgggggtccaacccagccgggccgggcagagcaaatcaacaagtagtaaaatattctctcaggggaatcgcggagcagctcacccggttgactcgctctgcggccgctcccctcggcgtctgatttgctcttggaacgggggagggcagctcggggagtaaaagctccaagaggttagctcaggcccctgactcctgaggatggatggatggaagcggcgaagaagaagacaaccttttctttacaaggtaggagtaagctgtaaaaagactgaactgaactgtgtggtttgttcatttgttgtagtgtagcagcctgtcctttttcatgtttttttaatcaaactagcaaaatggtgtccattaatcatctgtcataatatttttttggaactttgcatataaagtgagattacataaattttaaagtacatttggattaattatctattatttttatgacataactcttagtaaaagaaaatcctatcccaaagaatgaatattaatgcaaatatagcagttgcagcctaattaaaacaatatttcgttaaaatttaatggtattatacgctttaatgtcatttagcagggtaaattcactcgannnnnnnnatacttcacatacacgtcaaactgttacgtcaatgggtcttaaagtttggttgatattaatttcattttatcttaaccagnnnnnnnnnnnnnnnnngaattagacttctactgtttgtctatctttaaaacaactattttgtcgggaacgtcttttctatgtatttttctaaataataataaagttaaaatttctagtaaattaaattatgtatgttaatgattggttttcgttcataaatatgacataannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngattagttttgctttcgtaaagataagatatttatgacgtcttagattgattatatatcaggaagatgcatagtatgcattctattttaatcattgtcacacctaacacatcctatctagtacaccacatcttgaatgaagaagtatgagtcaaccactcctnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngctgagcatagcaacaccacccctagcactactgccctgaagagatgaagctacatatgacgaaccatgcgctccaaggcaacaccttcaggaagggtacgacaccagagcatcgccattgcccgatccaagaatcagagtttcccctggagccgcatgacaggcaatgagagccgcgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnccaacattcaccaccaccgaacgccacaccccggcaaccacaccgctcacacagccatggtgaccgggcatcaccagggcacgggctctgcccaagagcaccgcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnccccaacgaaagagacgagcagaaaggtcccaccttttacgcccctgggcgactcccagcatcgagacccaataggtcggccagaactggcatccaccgacccnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggtgtaccgtagctgggagaggaccagcccattgatgggagtagcgcccgggagacgaggagatggggtgaaggacgagacaacccaaacgcagacgaaccgacaccggagaagccggccgctgccgcgggcagatccgtcgagccatcatgaagccaccacgaaaccggtaggccgccaccgagacctccccatgccgccgcccacggctgg
|
@@ -0,0 +1 @@
|
|
1
|
+
BS00119198,5D,ATGCGGCTTGGTGCTCTATATATCAGACAGGATTCGGGCACAATAAATTG[A/G]CCCTCCTTCTGTGAGCTGTACTGAACTCGATATAATTCAGATATGTCAGA
|
@@ -0,0 +1,10 @@
|
|
1
|
+
BS00167765,3D,CTTGGAGGCTTCCGAAGTGAATACAACATAGTCTTGCAGGATAGTACAAA[T/C]GCAGTCTGATTATATGCCATGGAATGCTTTTCACCAAGAGGTGTATTAAC
|
2
|
+
BS00068396_51,2AS,CGAAGCGATCCTACTACATTGCGTTCCTTTCCCACTCCCAGGTCCCCCTA[T/C]ATGCAGGATCTTGATTAGTCGTGTGAACAACTGAAATTTGAGCGCCACAA
|
3
|
+
Excalibur_c25234_143,2BS,GTGGTGATGAAGATGGATGTGGAGGGGACTGAGTTTGACTTGATCCCGAG[A/G]CTCTTCGACACGGGCGCAATCTGCTTGGTCGACGAGGTGTTCCTCGAGTG
|
4
|
+
BS00183592,3B,TTGATCTCATAGAAGATGTAACAGCTCAGTTGCCTCCCAGCAAGGTGCCCCGTCTTCACTGTTTGGTGTGGCGAAAGTTATCATCTGTTGATTTTCTAGC[A/C]AAGTGTCCTGCTGTTGAGCCTTCACCAAGTCTCCTAAAAGGCATCCGGCAATCTTTGGTCTCACATCTCACTCTGGTATTAGGGAAAGATGACCTGGCAG
|
5
|
+
BS00183592,3A,TTGATCTCATAGAAGATGTAACAGCTCAGTTGCCTCCCAGCAAGGTGCCCCGTCTTCACTGTTTGGTGTGGCGAAAGTTATCATCTGTTGATTTTCTAGC[A/C]AAGTGTCCTGCTGTTGAGCCTTCACCAAGTCTCCTAAAAGGCATCCGGCAATCTTTGGTCTCACATCTCACTCTGGTATTAGGGAAAGATGACCTGGCAG
|
6
|
+
BobWhite_c10578_272,2BS,CAAGACGAAGTTGATCCTATGGTATCTGTGATGAAAGTTGAGAAAGCTCC[A/G]CTGGAATCATATGCGGACATTGGTGGGTTGGATGCTCAGATTCAAGAAAT
|
7
|
+
D_comp3873_c0_seq1:967,2DS,TTACGTCAAGAGATTGAAGACCTAGAGAAGGACACTGGATATAAGTTGAGAGTTCTCGCACAAAATTATCCAGATACACCAGGATTGGCTATCAAGGATTTTTGGCAAGTTGATGACAGAACTATTGTCTTTGTTGCAGATCCTACCTTCGGTAACATTATAAATTTCAACATTGGTTCGTTGATTGATCTAGACATTCCTCAGAGCTTCTGGAGTCGTGTTGCAGGGAAGTATGGGAACATGTTCTATTGGAAAGAAAAGGGAGAGGATGCGTCAATTGAAGGCGCTGTGATGGCAATATCGCGCTGCCTGAGAGAGCCCACAGGGGCAAGTAATTGTTCCGAGGTGTTTTAGAGGTGGAAGTTCATCGCGGAAGGACTGAGACATGAGGAACATAAGACCAGCGAATACTATATGTACATAATCGAAATGCCAGTTACATTAACTGAACATATTTTCGCCTTAATTTTTTAAAGTCAAAGGACATTCTTTTATCCTCG[G/C]TAGAATGCTGCAAAGATACAAAATCATCACCACCTGGCATCTGATAATCTGGGCAGAGTCAGACAGGACCAAGAAATAGCCCCTTGCAGTTGCCACAGCCATGGGAACCGGCCAGTTTCAGCCGGTTTTTATAGCCAGTGTAGACCAAGATATGCTATCTGAACCGGCTATCAGCACTGCTGATTCAACATTGATTCCAATCATCGTTTTGGCTGGTTCGATCGACTCTGGTCAGTTTGCACCTATTTTCATGTTAATTTCCAGTTGGAAGATACTA
|
8
|
+
BobWhite_c11739_325,2BS,GGATCAAGACTTTCAATGCGATTCGTAGCTAGAATAACTTTAACATCTCC[A/G]CGTGAGTCAAAACCATCTAGCTGGTTCAGCAACTCCAACATAGTTCTTTG
|
9
|
+
BobWhite_c10287_421,1BL,CTCGTGGCAGCTCTGAAGGTGTCCGGTTTCCCTGAGTTGCTCTTCACCAA[T/C]gcagggaagatactgcaccgagagaaagctgtccggtcggccgaggtgtt
|
10
|
+
BobWhite_c23388_471,6AS,AGGGTARCCGTCCTTGTCCTGGGCAGCGGGTAGGCTACAACTTCCATCTC[A/G]CCGTCCTCAACCACTTTCCTCATGACCACCGCGCCCATGACGACGAGCAG
|
@@ -0,0 +1,4 @@
|
|
1
|
+
Excalibur_c93405_296,6AL,gtacttcagccctagcatatcgaacctgaacctgtctttttagtgtggcc[A/G]CGGGTGGAGACGGAGGCTGGTAGCGGCTCCCCAGGAAGAAGACCTTCTTC
|
2
|
+
Excalibur_c97559_331,5BL,CGCTGCAGCCTCCACGCCTGCCTGTGCACCACCGCCGGCGCCAAACGCGA[T/C]GTTTGGGACACTCATGAAATCCCGTGACGCCACTGGAAAGACGTAACTGT
|
3
|
+
Excalibur_c9760_365,5AL,aagttctgattctttaatcgagataaaggagatgaggctgatcttccact[T/C]GAATCAGGACGCTGTGAGGCAGTACATCGCCCGCACCCCGAAGCTCCAGT
|
4
|
+
Excalibur_c9761_475,4AL,ACATTTGATGAGCTGAAAGATGGCTTGAAAAGGGTGGGCTCAGAGCTAAC[A/C]gaacatgaaatccaggctttaatggatgcggcggacatcgacaacagcgg
|
@@ -0,0 +1,10 @@
|
|
1
|
+
>IWGSC_CSS_3AL_scaff_4441924
|
2
|
+
catgaatttagnnnnnnnnnnnnnnnnnnngagagagagagagggagggatcatagtatgcatcgtccttcgcttatctagtgcgaggaactacagatagaaaggagaaatatgcttggcactgatggatatagaatgcagtgcatcataaccaaatatggacaaagcggcaatggctgtaaaagcaaccacgtgatgaaaatttgcaaatgggaacatggaacaaaaatagcaagagtttccatctcatgtacagtagtaaaggaaccctgaaaatggctgtaaaagcaatcacgtgaccgataacatactccctgtcgtaaaggaaccctgacatataaagttgtactatttcatcagataccttattagcgcagtagtacgtctttctagatgcctagaccccgcggccgataacatactccctgtcgttgcagaagaatggaaactgcacaggcaaggcaagcagtgaaggcaaaacttatatagtttgtaatgctttccagaaatattgccagggatatcacgcagatagtggcaaagcagtactacagcgggcattctagaatgaaacaaagtgaccaattttttaatcctaagctatagtatagtatcttgtatgtctaaacactgaataactgaaccaaatttcattgcaatcaatatcacaaatctacatatctcgtcaacaatccaaaaacagtacaataattgatataattttgaaaagttcagacaccgttgctcttgaattgtaaggctatgtctgaatcaactttgaaagactacacacacaaaattcttcagttatgcagtcgctcaactaaaaaactaactaagaaggcttcatgcatacctcgggatctcttctccaggcctggcaccgcatcgtcggcaatgtgtgttccatcatgtgtaggccgggccgccgtccttctcttcgacgaccctccctgcatcaagtccatgtgctcactgaaattgttgctccggcgccacagaagccgcctttgctctacacgatttacaatcaaatcaggcgaccacaacacgcacacacaggccgcaccctctgcctgtagccgccggctcgcgtgcaccctcaagcacaaacctgcatgcacctctgccgactggcctctgacgcatacgctctgcaatacactgagtttgaggggatgattacataattctgaaaaggttcaagaattgtatatcttttaaaagcataaacaacatatttcagaatctactagtgcaaaacttacacattcacaactttccctttagtagttttttaaatgcataaagaacatcatatttctcatgggcggcctgctggttgcacaaatactccaggagaaccatagctgattagtttcacttctttctagatttccattttgcgctagtccaccaagtcctccaccaatatccgtgataaccccgtggcacggtaagtgaaggatacatcacaaatactctgaaaaaggatgaaaaataaacataattgtcaaatgaagatattattatgtaaatggaacagccggagaggcttacgttcaagctgaaagagccatgatcccacaggtcctaatccgtcccttcgtgtaaataacaatggaattgatacagtgctttaatatagcatttgacaaacaataagcaagaagaggattgatgcttcattctctaatacatgtctttagttcctgcatacacactggacggatttaattcagatgaagataaggaaaaacgggtgcacccttcctatgcacatggcatatccattagagaattagtggcagtggttaacctaaagagtctggaattacattacacaaaaagagaacagggaaatgtgtagacatcatatcatacagctagaatgctaaatgttgctcctaactgaactgaactaagatggcagccaaatctgaacttgaactcaactaaatggctacttgagctaatataattggtccaaaaaggtcattttaaaactgtatcggagataaccatggaaataatttatagaacataaaaaagaaaaacaacatttagcttcttgtaaccgtacaagtggcaggaatatacaaacagaattatctttgggtgcccaaaacaacttcacttcaattactcactatacaatttggttctgtagaatggtagatcagaagtttctttctggttgatacaataactatgcatgaggtgctagctccagtaaagtagtatatgttagttctaccagattgcaataatatcggataagcctccaaataggtgcatgttgacaagaaaatatgactggtatactaagtattcactataacatgcatgctttcttaatggtaatatttgttgatttccatattctgcaaatacgaacgactgatgctttcccaccacgaatacattttgtactnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncaatagcaccgtacctacagagtctctcgaggtctttctttaactcaggagcgtacttcagccctagcatatcgaacctgaacctgaaaacaacgattgtcggtttaatagatagtgcatatgcacaaccaagtgatagtttaactggacatcaaaatcccgttgtccacaggcgtaatttaaaccctgccgggcatgaagatcatgacacacaccattctaagaaaactaagaaattttatttgtcgtggatgtggtggtgagaacacaaaacagcaggggcacaccaagcagacgtgcacagcagcagcaaccagcaacatccacacatgcacattagcaagcaagtattgagatctgccaaggccgtnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncttgaccatacgtgcagtagggaatatgtcgagggcgcggcggcgtacctgtctttttagtgtggccgcgggtggagacggaggctgg
|
3
|
+
>IWGSC_CSS_7AL_scaff_549424
|
4
|
+
ttttgtgttctcaccaccacatccacgacaaataaaatttcttagttttcttaggatcatgtgtgccatgatcttcatgcctggcagggtttacatgacgcttgtggacaacaggattttgatgtccagttaaactatcatatggttgtgcatatgcactatctattaaactgacaatccttgtttttcaggttcaggttcgatatgttcagggctgaagtacgctcctgagttaaagaaagaccttgagaaactcttagtgtgttgttgtcagtactactccaatactttggtgtggggttgcatagtactccaataatttagtgtggggtagtaaaaaatgtgttcgtggtgggaaagcatcagtggttcgtatttgcagaatagggaaatcaataaatattaccattaagaaagcatgcatggtatagtgaatacttagtataacagtcatatcttcttgtcaacatgcacctatttggaggcttattcgatattattgcaatctggtagaactgtgttactactaagaattgaatatttttagttggaatactattttaatgatcaatcacaatgttggacgcgaccacctatttattcccaagactttaagtcttgggtggcttaagcacaatatgccaggcatatgttctacatctgtggcatgtaatgaccctactggcatttcaagaggtcttgtaaatacaaaaataagtgttcactgcgtgagatttattaaatgttttagatatctcgcttgtggatgctcacccgtagctaatatcctgagtatattgataacaggtttaggtctggacggttattgagcctgcattgatgaaatagttgacaaagaagcaactgaaatgaggttattgagcctgcattgaagaatcttggttgatgagctgatatctgaccaaaaactcaagaactagaagcaagcctgacatcctttttttgtaatcggtatgttctcggtagcaagcctgtcatccttttctatccacatgaggcttactattttttacttgttgtcaccaatcaataaaacattgtgtattcattgcatatggtgaatggccttctagatttgtaagttcataggtagttatacaacagcagagccatgttctaaaaacagattcgagcctttccttggtttggagttgggccccgacgaaacgtccgagcgcatgaaatcagttcttttcaagaatgcaactgctttttttctctcatagtttccacccgtaacatatcacaagtatctttagtctaagaaagtaagaaaagtgaacttacatgatttttttaaattactaaataacttacaagataatgtatatttccgtttgagcattccaaaaactgaatgacactccattaagttgtaggatgcataaggtaagggaaatataggaagccaagacatctgtagtaataccagaagtggaagaacaagggcaagaaaacatttaaaagggccaatgataggcggaaaaagattcacgtggttaatagtcatgttttacaccaaggaagaacagaggaatggaaccaaagagaaatgagtgagcatacacctttgctagattttatgaactggactaatgtacaaaaacacacattgtcatcttggtgcatgtagatatttaatttaacaaattgaattccacatgaagcatactatactggacttctttgggctttacatgtgctcatattccataattcggatcagaaatgaagcctatgtgtatgtataaagcatttgcattatactaatattgtgtgtgttgtttttaatgccaaaggtaaatctgaacctgctcagaccacggggaggatttctctggtggactatcgctggcaaggttggcatgggagtaggcccgtaccatgggttcgtgcagctggagaaccgtggctagtgttgcgattgcctaatgtccatgtggagcataactcggcatgaggtgatatccttttatgataacctagctgtacacaatttcttcaaagaaaattaagattgatatcaaacttgagatcttcaatgtatttaaattagttcttaaattgctccaaagctactgaaatctcccttattatatttttctgtagatactgattgttctaattaaactcaccacttaaattccatagaaatgagaggctcaaggaagcaacaagtaggatgaaggagttaacgggcagaagcatagatcacagaaaaacaagaatatgttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngctttgtatctcagtatgttcagagtggcttcaatctacaatttaaaaaggtgaatattggttggatcatgacacaagtgatgtggcttcagtcatgtttcttaagctaccgtggttatatcatcactaggccatatagcttaccaataaccttcttaagtacttccactgaaccatcatgattgccgactaatttttgtgttcatggttatatttcagagaaccggttcaaagaaatgtgaacactggttgggggttctaagaaggatgaccctaaatgggagcatgacagacaccgtggtccaggaaataagggggaatctcgtggtgtctactatgctttcagaaatcctatgcagtcaaggagattccttcagatttttgcatgatgagcaggtagttgtaaagggtcgtggtgtctactatgcttatcagaaaagtgagtgcatttgtgaagcttcctgcagagtttcacatgatgagtaggtaaatgtgttgcttgtgcatttaccaagtagttatataggagagcacacaagcaacagaccacacatcttgtgctaatttccatgataagttttagcacatatgaacaagttatagtgccagttaagttatgaatagaaattgagttgcttatcattgagtaaaagacgttcctttagagtatttatagttttatactaatactttatcaaggtgatatgctgaagatttgtgattatcatagtatggcctttacattgcttctgtatgatctgacctgttgagctcatcacaaagaccataaaaattggctctatccctgatgtacaataaaaaaggggaactatagcctcagatcaaaaaattttcttttcctatgtgattttgcagcgggacttgcttatggagacattcgctctgggtcaaagcttaagaggactgatgcttttgaccatttaattagtgtttaggtatgccctcctctcctttcccttcagctggaatctctgataaggttgtaatttgctggtgcagtgctgctctgcttttatttgtggatttctttgggatctaattttgaactgtcaaaactggtttgttgggtgccggttggtttaacatgatgctataatgccgtagagagagatatgtttttccagtagaagtggccggttagttaatttgagatttgtgccttttgttcttcaggcctgaagcttttggtttcaggccgacagttaaaagttgcattggcttgtaaaaaacttcatgtgactggaccagtagggggaggatagcttcatatggaaaataattctccatggtgggaaaatttgttatttgacatgattatatacagagatacaactagcagtgtttaaatatgggttcatctcaacctatgattcctatgtatataatttttggggctagaact
|
5
|
+
>IWGSC_CSS_6AL_scaff_5756048
|
6
|
+
nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngttcacttttcttattttcttagactgaagatacttgtgatatgttacgggtggaaactatgagagaaaaaaagcagttgcattcttgaaaagaactgatttcatgcggtcgaacgtttcatcggggcccaactccaaaccaaggaaaggctcgagtctgtttttaaaacatggctctgctgttgtataactacctatgaacctacaaatctagaaggccattcaccatatgcaatgaatacacaatgttttattgattggtgacaacaagtacaaaaaatagtaagcctcatgtggatagaaaaggatgacaggcttgctaccgagaacataccgattacaaaaaaaggatgtcaggcttgcttctagttcttgagtttttggtcagatatcagctcatcaaccaagattcttcaatgcaagctcaataacctcattttagttgcttctttgtcaactatttcatcaatgcaagctcaataaccgtccagacctaaacctgttatcaatatactcaggatattagctaccgatgagcatccacaagcgagatatctaaaacatttaataaatctcacgaggtgaacacttagtgttgtatttacaagacctcttgaaatgccagtagggtcattacatgccacagatgtagaacatatgcctggcatattgtgcttaagccacccaagacttaaagtcttgggaataaataggtggttgcgtccaacattgtgattgatcattaaaatagtattccaactaaaagtattcaattcttagtagtaacacagttctaccagattgcaataatatcgaataagcctccaaataggtgcatgttgacaagaaaatatgactggtatactaagtattcactataccatgcatgctttcttaatggtaatatttattgatttccctattctgcaaatacgaaccactgatactttcccaccacgaatacattttttactaccccacactaaattattggagtactatgcaacctcacaccaaagtattggagtagtactcacaacaacacactaagagtttctcaaggtctttctttaactcaggagcgtacttcagccctgaacatatcgaacctgaacctgaaaaacaaggattgtcagtttaatagatagtgcatatgcacaaccatatgatagtttaactggacatcaaaatcctgttgtccacaggtgccatgtaaaccctgccaggcatgaagatcatggcacacatgatcctaagaaaactaagaaattttatttgtcgtggatgtggtggtgagaacacaaaacagcaggggcacaccaagcacacgtgcacagcagcagcaaccggcaacgtccacacacgcacattagcaagcaagcattgagatttgccaaggccatatggggcaagataagcgatacatgattgaccatacgtgcacgggagtgagaatatgtcgagggcgcggcgacgtacctatcttgttggcgtggcctcaagcctgtatcacgttcggacctccatggacgaccttgagggatagcggcccgccggtgcggctgcggatctgggcgctgccttcccttgccgccggatcccttccattcccttccctcccttgggagagggagagaaggtgaggggggaggaggccaccgacggtgtcgccatggctgggcagggctcctcgcgcctgcctactaggtcgtcgtggcatcgggtgggctagggtttcgcccgagctgctggagagatgggttgacggagagggcggggtagagggaggtcgccggcatggatgggggagaggaggccgccagcgaggcatgtcgccggggaggatgggatnnnnnnnnnnnnnnnnnnnnttcagtcccaaggaaacagatcgagagaggagtcgagggggcctcgttcctctggtttcgtttcgtgggacggggctcagttggttttggttggtttttttggaaccgtaaggtgggatcgaggacgaaaaaaatctaccaaggttaacctacgaaaaaacccggacgaaagtggtgggatgaaaattgaccggcggagactaccaacagctccactaggaatagagatatagttttggcgatgcacacatactccacttggcccccctctaatcctcgaggggacgaaacatgtaggaaaccctttgtgatccaataaatttatgattggatcgtcgcgctcaaatgggccatgtacgctaattctccaccttgccaatatcatatagaaagatggcatttcctatttgtcgccaaaggccccagttaacatgcatttttgttaactggcgcctgtggcgttcataaatgggccggcccatctaggtgccggctgacgattcattttttgaaaattctatgaacttttttaaaattttaacagattttttcagattaatgaacttttggaaatattgatgaactnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttgctaaattggatgattttttttcaatttgaatgaactttttctaaaattgatggacttttttcaaaattgatgaaccttttttaaagatatgacattttttccaatgatgaacctttttctatttaaatctgtaaaccttttttgatttcatatttttaatttcgtaacaaaaataaaaaatggggcagtatgctagtgggccagcccatgctagcaccgctgcaggcgccggatcattaacgggcgcctgtagcgctgcataggagctccctagaaagatggaaggtgctctcgcgtaaggagcgcacgcaggctgatctatgcccattagcctaggactcgctcgctgtacgttttcttccnnnnnnnnnnnnnnnnnnnnnnnacacccgatttctttggtttttcttctttcatataacttcannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttcttcaagtttaatttacttccatctttttatattttttaattactttcttggacttctctgggnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagaacaagtgtacattttacatatacatcgggtgcattttttaataatctttaacaatttcaaatacacgattaaatttcatgaaaatatatgttttatgtagattttatatttcatacacattgtatatttttcgtataaatcaggaacatttcttatacatataattaacagtttacaaatacatgattatagtttttcctaatatgtcatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaatatagcattttttatannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngggtnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntatcaaatatttcctaccagcagtggtggttaccctcacgtgagctttgtatattgtatgtgctatctgacaaaatcgagagtatggacatgtagtatgtagtatataaaaatattgccccacaaaaaaagtatataataatattttgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncaaatatgaaagtattttcaaaatatacaaaaaatatggactcacatgcaannnnnnnngtatagcttgctttgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnctaccacatgatagtatatgggacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn
|
7
|
+
>IWGSC_CSS_3AL_scaff_4451587
|
8
|
+
ccacgccaacaagataggtacgtcgccgcgccctcgacatattcccactcccgtgcacgtatggtcaatcatgtatcgcttatcttgccccatacggccttggcaaatctcaatgcttgcttgctaatgtgcgtgtgtggacgttgccggttgctgctgctgtgcacgtgtgcttggcgtgcccctgctgttttgtgttctcaccaccacatccacgacaaataaaatttcttagttttcttaggatcatgtgtgccatgatcttcatgcctggcagggtttacatgacgcctgtggacaacaggattttgatgtccagttaaactatcatatggttgtgcatatgtactatctattaaactgacaatccttgtttttcaggttcaggttcgatatgttcagggctgaagtacgctcctgagttaaagaaagaccttgagaaactcttagtgtgtttttgtcagtactactccaatactttggtgtggggttgcatagtactccaataatttagtgtggggtagtaaaaaatgtattcgtggtgggaaagcatcagtggttcgtatttgcagaatagggaaatcaataaatattacccttaagaaagcatgcatggtatagtgaatacttagtataccagtcatattttcttgtcaatatgcacctatttggaggcttattcgatattattgcaatctggtagaactgtgttactactaagaattgaatatttttagttggaatactattttaatgatcaatcacaatgttggacgtgaccaactatttattcccaagattttaagtcttgggtggcttaagcacaatatgccaggcatatattctacatatgtggcatgtaatgaccctacgggcatttcaagaggtcttgtaaatacaacactaattgttcacctcgtgagatttactaaatgttttagatatctcgcttctggatgctcatcggtagctaatatcctgagtatattgataacaggtttaggtctggacggttattgagcctgcattgatgaaatagttgacaaagaagcaactcaaatgaggttattgagcctgcattgaagaatcttggttgatgagctgatatctgaccaaaaactcaagaactagaagcaagcctgacatccttattttgtaatcggtatgttctcggtagcaagcctgtcatccttttctatccacatgaggcttactgttttttgtacttgttgtcaccaatcaataaaacattgtgtattcattgcatatggtgaatggccttctagatttgtaagttcataggtagttatacaacagtagagccatgttctaaaaacagattcgagcctttccttggtttggagttgggccccgacgaaacgttcgagcgcatgaaatcagttcttttcgagaatgcaactgctttttctctctcatagtttccacccgtaacatatcacaagtatcttcagtctaagaaaataagaaaagtgaacttacatgattttttaaattactaaataacttactagataatgtatatttccgtttgagcattccaaaaactgaatgacactccattaagctgtaggatgcataaggtaagggaaatataggaagccaagacatctgtagtaataccagaagtggaagaacaagggcaagaaaacatttaaaagggccaatgataggcggaaaaagattcacgtggttaatagttcatgttttacaccaaggaagaacagaggaatggaaccaaagagaaatgagtgagcatacgcctttgctagattttatgaactggactaatgtacaaaaacacatattatcatcttggtgaatgtagatattaatttaacaacttgaattccacatgaagcatactgtactggacttctttgggctttacatgtgctcatattccataattcggatcagaaatgaagcctatgcgtatgtataaagcatttgcattatactaatattgtgtgtgttgtttttaatgccaaaggtaaatctgaacctgctcaaaccacagggaggatttctctggtggactatcgctggcaaggttggcatgggagtaggcccgtaccatgggttcgtgtagctggaggaccgtgctgcgattgcctaatgtccatgtggagcatagctcggcatgaggtgatatccttttatgataacctagctgtacacaatttcttcaaagaaaattatgattgatatcaaacttgagatttgcaatgtatttaaattagttcttaaattgctccaaagctactgaaatctcccttattatatttttctgtagatactgattgttctaattaaactcactacttaaattccatagaaatgagaggctcaaggaagcaacaagtaggatgaaggagttatcgggcagaagcgtagatcacagaaaaacaagaatatgtttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntttgtatctcagaatgttcacagtggcttcaatctacaatttaaaaaggtgaatattggttggatcatgacacaagtgatgtggcttcagtcatgtttcttaagctaccgtggttatatcatcactaggccatatagcttaccaataaccttcttaagtacttccactgaaccatcttgattgccgactaatttttgtgttcatggttatatttcagagaaccggttcaaagaaatgtgaacactggttgggggttctaagaaggataaccctaaatgggagcatgacagacaccgtggtccaggaaataagggggaatcccgtggtgtctactatgctttcagaaatcctatgcagtcagggagattccttcggatttttgcatgatgagcaggtagttgtaaagggtcgtggtgtctactatgcttatcagaaaagtgagtgcatttgtgaagcttcctgcagagtttcacatgatgagtaggtaaatgtgctgcttgtccatttaccaattagttatataggagagcacacaagcaacagaccacacatcttgtgctaatttccatgataagttttagcgcatatgaacaagttatagtgccacttaagttatgaatagaaattgagttgcttatcattgagtaaaagacgttcctttagagtatttatagttttatactaatactttatcaaggtgatatgctgaagatttgtgattatcacagtatggcctttacattgcttctgtatgatctgacctgttgagctcatcacaaagaccataaaaattggctctatccctgatgtccaataaaaaaggggaactatagcctcagatcgaaaaagtttcttttcctatgtgattttgcagcgggacttgcttatggagacgttcgctctgggtcaaagcttaagaggactgatgcttttgaccatttaattagtgtttaggtatgccctcctctccttgcccttcagctggaatctctgataaggttgtaatttgctggtgcagtgttgctctgcttttatttggggatttatctgggatctaattttgaactgtcaaaactggtttgttgggtgccggttggtttaacatgatgctataatgccgtagagagagatatgtttttccagtagaagtggccggttagttaatttgagatttgtgccttttgttcttcaggccgacagttaaaagttgcattggcttgtaaaaaacttcatgtgactggaccagtagggggaggatagcttcatatggaaaataattctccatggtgggaaaatttgttatttgacatgattatatacagagatacaactagcagtgtttaaatatgggttcatctcaacctatgattcctatgtatataatttttggggctagaactgcggccactgcccaccaccattacaagtcaatgataggagctccttggatgtactcatgcatcctttgtcagatccttttcttttgaatcgattgatgaaccgatggcatctcaggactaactaccccgtacgtgtactccactaactaaggatagctcgtgaatatttcagcctttttgtcgaaacgctaaccaaaatcactgaaattcactaaatttaggtggttttggttggtgatgaaaattttctgaaactgaaagtgaaaaccatagaatactgaaggtgtttgcagcctgtaattagcgccctacttagcatcaagcattgagagagggcatttagatgattttagattttacgacttcgtatctattttcttaatctctaagcatttacacatgcgactcgcattgtagatgctattagcctactgctgctatcgtccctttgtacacacatgcacatttgactgatgaagaaaatgcctcaaatcatcaaacccctgattatgtgttgtgctcttgcaagactgaaactgacacattctcttctagatgttaatgatgtccgattgcatgtggtggttgtgtcgttgaagctcacatgatcgagtgtttatgcacaactaaagttggcacattcagttcttcatatattgaacaactttcaaaacttatgaaagcaaagagcaggcgaaccatcatctaggctctactgtacctcccattgannnnnnnnacttccaaaacttataatgaacacaacaggttccaatgcaatttcacttgacagatgttgttatttaggttttaatcatactatatcagcttcaaagtttatttttactctcaagtagtcaatatctgagcatgaacactcaaactattgcagggggaggatttccacagtaacccttggctggttaacctatttggaatagaattccctgatttgaatatcaagcattcacaaatgcagaatacattgtctcgaggtacaatcccacaagattctcaaacaatcactaattcatgaattgcagtagggtgaacccaagatgtccggagcctctcttgtgaatcacattgcttacaatgatttcatgattgagatgttgggatttgaacaagatgcatcttttaaaggtgtgactgtagaagtttagctaaataaacagaatatatctactgcaagttgatatatagaaaagtggatttttgcataggttttgtatnnnnnnnnnnnnnngttaagtcggtacttccttttctnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnccgttgatttaatcaccgttgtctgtgatagacgttcacagatctggatgcctttgcttgccaaataaaatatgaacaataattatgttaggaagttacactagctttgacgatccgatcattcatggaatgttttccggcattgccaacatattgagtacttcagttgtaagtctgtaagcagttctctttgaaagagaaaaatgcatacatgcttcagtgaatggccacccccttctattttagtaacactgcacttcttagtagtacttgctaatcagtatggttattggtctgtaatcttattgtttctacattaattctttgtacgtaggccggatcaagcgcatcgccgatgccacgatcgccggtctgccgtgttactcctctcatgtgcgccctcgatgctgacgccgtcctattttccgcagccaccgccgtcgggctccgcgtccacgtgcgccttcaaacctactggatgcaatctcgcattgcgctgtcatccgcactatctggcaccacctatggacacagaacgacggatcaaggtttaatgactttgatcaggcaagatacattctgcccgctcatctccccgtgttgccgttggtaagtatggtagtattctcgatgcttcttttagtgcttctctctaaattcgttgggatccaattttgttcctgcaaaagttgcttgtgttctgtataggtgtacagttttcatgttaactggaaagtaccaaagttatctatcctagcggcatcaaactacaattttcttgttttattaataatttaatatgagatatacaagaaagtgcagcgggcatggcttgtactcatgcttgaggatatttggcttaggctcctggactgtgtcatggccacactgaagacgggacacttgtggttatcttcatgtgtcattggtggtcagagaaaccaaacaaagctggagtgaaaggtctatgagtttcaatacagaacaaagggtctacgagtttcaatacattgtcgaaaaattgtgccaaacattaaggttgatttcagttccttcatccttctagagcataagaaaaatatggttctttgcttgaaaaaattatggcttaattctggaaagcattaagtttccatgcatgctcatactgatcaatccataactctaaaaacatgataccctctttcacatgcttcatataagttatgcacatgccatctcgctaagcactgataacatgtttcgtttaacagatcatctaagatttgcataattgttttgagaatgagcagaacagcatcgacatcggcctcgatcggtgtcggggcaatggtgaaccaatgaagaagcttaaggcggctcaggtagggtggcacacgatattgacatcgaccacgaccagcgtcggaggatgggtcattgggacggaaggaggaagacaaagaggaggaagaagacgatgatcacaaaattttagcactgataaaaaacatgcggtcgatgcatagttgctcttgtagtatctgctaaagaaattcataaaatatgatatatattcgtaggacttcactc
|
9
|
+
>IWGSC_CSS_5BL_scaff_10844348
|
10
|
+
gtgttagtgcctacatgcagttttgaacattactacatgcctagctatttggtttgcaggatttgtaaaatgcactaacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaacattcagaaatcgtactacattgtcattgtaaacttggaaaaaggtgtcacaaattgaactcccttatggttaacatttaacaggaaaggaacatcacctcgacatatagcttctccaggcatggaaagcatctcaggaaactgacaacttgctccaggtcgggcccgacagattctacttccaagaccttcactgtgcgcagtttcagggtcaagcttgtcggaatcattttctgaatgacagacgaacaaacatctttaaaattagaaataatgttaatttgtagaaggagaggtagaaggcggttgttgtacctgaacgggtgtggatccaataacaggttcagagtatttgtcagacgagtagctcannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnatcggaaaatgccaatgacggccgagccacaggtaggccggtatctgggccgtcctgccaccatggggatgtgcgctgttagagtatatgtcttgtatttgatttatttttgaactgtattgagtcaggtaggtcccaggcacatgcaaaggcatctaggcttctcacacgcctctgacatttatggcgatctggtgcatgtccatgccgtacgtcctggtgcatgcatggcctggcctggagcatgtgtgtccaacggagaccaccaattcaccgagtgcggacgtggagcatgggtgaccagcgaacagataagtttggtcaccattagccatcattcattagtcaaatcatgttaatgtgatcactcaggccgaactaacaaaacgagtcaggggtagatagtatgtgtgctaacatgtgaatggattttatctgttttacagactaaaaaatcgcacagattaggtacagactcgctaacaagtatgtgatggaggcatggagctaatagtttcaaaatcacacgtttcgtgttgacttaacacaccaatgcgacattagtgatgtcactttacgcgggcgcgcgcagtgtatctatgcagatttcttgtcgcccaactgccggcgttgcgcggcaggaaagcagcaccatcatttctaggagaaaagtttttgggagcagggcttccatcagttgtcacctcgtactaccagcggctaaatttcgtgttttgacttttttcgtaacttattcgaaatctgactctagttcgtaaaaaattcgagatctgacccttttctnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgnnnnnnnnctaagtatggaacacagtgcacgctcgcacctaccgccggacaccttggcggtagggttgtacagcctaccgccagcctgtttggcggtaggggtctttcttaacgccaggggccttggcggtaggctgttataccctaccgccaagggctttggcgataagaaagggttagatcccaaaatttttatgaatcggggtcagacctcgaataggtttcagaaaagggtcaaaacatgaaatttagccactaccagcacatgcactcatcgagcacgcacactacttagccgtgacagaccaggcggtgtggtgcacgagcaaactagacgagaaacgcacaacacaatgtgttaacacccgccaaaaactgacacggaatacttattagcacggagtactattaatttcttttcgctcgtaggtcgaaacgtcaaaaattcaggtaaaacatcgttcacttttcgggtgattagcaactcgttggcgaagagcatataactgaagcccaacagaaacaaaatgcaggcatgtgtagttaacaacagccacaacaacatttgaattgagttcctgcctaccaaagctaagtagtggcatgatatcaacgccacagttttgaactagcggttacgtaaactaacagccccatgatttaacatgcagtttacatagtagaccaaacaacaattcagggaagggcataaaagatagttctggttgtgcccaacaacaccacgtttgataaacttcggcgctgttttcacaactggaccatcacccttctctgcataagcacgcacagaccattgtagcgatgttttcctgttgggattcatctccctctcctcaggagccctgccgatccttatcctgaacaattgggttagcaacatatcaacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnaatagatgcaagttatttttttgctcatggcaaacatatgcactcccaacagttacctataactaaattcagcacaaagaataaaacacctataccatcagcttggtcgcacgttccgctgagccacaaacaaataatcttactacttttggctgtgtcaaaaacacagatataagaccatccacaatccagaattacaactacctaggtctatagctgcacattgacagtatcttcatgccaccaaataatccagtcctctttctgagaacaccagcatctaaatccaaatacagataatcaactgtttgttcctttcaatgcatacacatcaccggtgcattattacaactgaatccacaccttcagtacatctgaacccagtaattacaacatccactcgagcatataaaccgcaaagatctatcaaggataataacagtttttccatctaacaccaccaacagaatgcatcatcccagtgctcccctaaaaattaatcatgtacacaaatccaaccaccatactataaaatccaaccacatgtgcaaaaatcttcaatctccaaacacctgtggagttttcaaatctcgagttatgcaaagaatccaactaccccactattaatcaaagagccactaggttagtgctaacatcagtggcgctgcaattccaacaatctatattaatcaaagagctctacattttcatacccagaactctttttttcgaaaatgatccacggcatgtacaactagcacactaccggaacagtacaaatatgtgcagaacatactatgaatcgccgcagaaacccaaaatcaactcttctgcacactagcaacataaacatgattcagatctaacttcgcacggcactccaaagaagaattgtggcagagcatcagcacactgacctccgttgtccagccactggtggcttcagagcacacctcgcccgctgcagcctccacgcctgcctgtgcaccaccgccggcgccaaacgcgatgtttgggacactcatgaaatcccgtgacgccactggaaagacgtaactgttccacggcgagggcgcagcacacatcctgcatgaatcgaagccgagccaaatcggttagaaatccccaaaatctgcggcggtaaacagacacctagatcaagagagggttggccggagggggagcatacatacccgttgagctgaggccattggtggaaatctcgccggagcagcacaggcgccgccgttcgccagatggggatgggggtggaggagccgacccgctgcgtggctctggtttattccacgcagacacaggccgcagtatcgtcgtggggacgcgggtgactagggcaagattctctcgcctgtgctgtttcgaacgataagtcatgggccgcacacaataggccagtactaggcgccggtccgccggcgctaggttcggccggtcagaccccagccgttcgatctggtacagtacagccgtccaaaaaaatcattcgtcccgatctagccttcccttccgtcttcttcctcccaacgaatcccaaataaaatcccacgccgctgtccccgcggctccgccttcgtgtgcagctcggcgaggggaacgactgccggccgccgcgcgcttgcacctctattccttgtagcccctctgctgctcgccggagaaccttctcgctagttaattttcagttacaagctccacctcagagttgcaactcccccgtcaacgctccatggttgtggcacccaatgtgtcgcctccgccactcgtcgtcgaccctcgctgcgactgacgaccaccattaaacgacattgagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgtcaccgtcatcgcgggggcgcaggtccgccatgatgaatgtagcaaaatcgtttgccggttgcagctttttgagccgctgcttccagctttttgcatcaatggttccaacattggcagcgacggcgtggttgcagctcgcggaccgccgaccattgattagccgatgtgcaggttacagcttgccgaccaccggatgtagcaccgcctgatgccggttgtagcgccgcagccgtggggaggcaagagctgcgcgagcaccgcatcagcaaagtcgctcctcgggaaagattgacgtgcttgaccaccatggcttgcagtctggaggaaggggatttgggaggaaagagatgggaaaaaacaagtggacgctgttgtcttggggaagataagacaaagaaggaagcggtgcgtgtggggccggagtgacgtgttgcatgctcgatggcgcaaagcgcgttagcgagcgaggcgtccggcccagtttcggccggttcgccgattacaaacgtttacccacacaatacgcctacacattccctagccgtatcgcaggctgtatttcactacatagacctgccacccactgacggattgcacatcccaaggctcaaatggacgcccatgataccggcctacatgtggctcggcctctgaaaattcgcactagcgttacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnng
|
data/test/test_bfr.rb
ADDED
@@ -0,0 +1,51 @@
|
|
1
|
+
$: << File.expand_path(File.dirname(__FILE__) + '/../lib')
|
2
|
+
$: << File.expand_path('.')
|
3
|
+
path= File.expand_path(File.dirname(__FILE__) + '/../lib/bioruby-polyploid-tools.rb')
|
4
|
+
|
5
|
+
#puts path
|
6
|
+
require path
|
7
|
+
require "test/unit"
|
8
|
+
|
9
|
+
class TestPolyploidTools < Test::Unit::TestCase
|
10
|
+
|
11
|
+
|
12
|
+
#Set up the paths
|
13
|
+
def setupre
|
14
|
+
data_path= File.expand_path(File.dirname(__FILE__) + '/data/' )
|
15
|
+
|
16
|
+
@ref=data_path + '/S22380157.fa'
|
17
|
+
@a=data_path + "/LIB1721.bam"
|
18
|
+
@b=data_path + "/LIB1722.bam"
|
19
|
+
@f2_a=data_path + "/LIB1716.bam"
|
20
|
+
@f2_b=data_path + "/LIB1719.bam"
|
21
|
+
@fasta_db = Bio::DB::Fasta::FastaFile.new(@ref)
|
22
|
+
@fasta_db.load_fai_entries
|
23
|
+
@bam_a = Bio::DB::Sam.new({:fasta=>@ref, :bam=>@a})
|
24
|
+
@bam_b = Bio::DB::Sam.new({:fasta=>@ref, :bam=>@b})
|
25
|
+
@bam_f2_a = Bio::DB::Sam.new({:fasta=>@ref, :bam=>@f2_a})
|
26
|
+
@bam_f2_b = Bio::DB::Sam.new({:fasta=>@ref, :bam=>@f2_b})
|
27
|
+
puts "SETUP"
|
28
|
+
end
|
29
|
+
|
30
|
+
def teardown
|
31
|
+
|
32
|
+
end
|
33
|
+
|
34
|
+
def test_snp_between_consensus
|
35
|
+
setupre
|
36
|
+
|
37
|
+
reg="gnl|UG|Ta#S22380157"
|
38
|
+
region = @fasta_db.index.region_for_entry(reg).to_region.to_s
|
39
|
+
min_cov=2
|
40
|
+
|
41
|
+
puts region.to_s
|
42
|
+
|
43
|
+
cons_1 = @bam_a.consensus_with_ambiguities({:region=>region, :case=>true, :min_cov=>min_cov})
|
44
|
+
cons_2 = @bam_b.consensus_with_ambiguities({:region=>region, :case=>true, :min_cov=>min_cov})
|
45
|
+
|
46
|
+
puts cons_2
|
47
|
+
puts cons_1
|
48
|
+
|
49
|
+
end
|
50
|
+
|
51
|
+
end
|
@@ -0,0 +1,17 @@
|
|
1
|
+
$: << File.expand_path(File.dirname(__FILE__) + '/../lib')
|
2
|
+
$: << File.expand_path('.')
|
3
|
+
path= File.expand_path(File.dirname(__FILE__) + '/../lib/bioruby-polyploid-tools.rb')
|
4
|
+
|
5
|
+
#puts path
|
6
|
+
require path
|
7
|
+
require "test/unit"
|
8
|
+
|
9
|
+
class TestExonContainer < Test::Unit::TestCase
|
10
|
+
Query=File.dirname(__FILE__) + '/data/'+"BS00068396_51.fa"
|
11
|
+
Target=File.dirname(__FILE__) + '/data/'+"BS00068396_51_contigs.fa"
|
12
|
+
|
13
|
+
|
14
|
+
def test_simple_container_test
|
15
|
+
|
16
|
+
end
|
17
|
+
end
|
@@ -0,0 +1,53 @@
|
|
1
|
+
$: << File.expand_path(File.dirname(__FILE__) + '/../lib')
|
2
|
+
$: << File.expand_path('.')
|
3
|
+
path= File.expand_path(File.dirname(__FILE__) + '/../lib/bioruby-polyploid-tools.rb')
|
4
|
+
|
5
|
+
#puts path
|
6
|
+
require path
|
7
|
+
require "test/unit"
|
8
|
+
|
9
|
+
class TestPolyploidTools < Test::Unit::TestCase
|
10
|
+
Query=File.dirname(__FILE__) + '/data/'+"BS00068396_51.fa"
|
11
|
+
Target=File.dirname(__FILE__) + '/data/'+"BS00068396_51_contigs.fa"
|
12
|
+
#Set up the paths
|
13
|
+
def setup
|
14
|
+
File.expand_path(File.dirname(__FILE__) + '/data/')
|
15
|
+
|
16
|
+
|
17
|
+
end
|
18
|
+
|
19
|
+
def teardown
|
20
|
+
|
21
|
+
end
|
22
|
+
|
23
|
+
def test_simple_align_array
|
24
|
+
# puts $LOAD_PATH
|
25
|
+
alignments = Bio::DB::Exonerate.align({:query=>Query, :target=>Target})
|
26
|
+
assert(alignments.size == 4, "The count of alignments should be 4, it was #{alignments.size}")
|
27
|
+
end
|
28
|
+
|
29
|
+
def test_parse_alingn_line
|
30
|
+
line="RESULT:\tBS00068396_51 0 101 + 2BS_5163353 7425 7323 - 462\t96.04\t101\t11974\t.\tM 69 69 G 0 1 M 32 32"
|
31
|
+
aln = Bio::DB::Exonerate::Alignment.parse_custom(line)
|
32
|
+
assert(aln.query_id == "BS00068396_51")
|
33
|
+
assert(aln.query_start==0)
|
34
|
+
assert(aln.query_end==101)
|
35
|
+
assert(aln.query_strand==:forward)
|
36
|
+
assert(aln.target_id=="2BS_5163353")
|
37
|
+
assert(aln.target_start==7425)
|
38
|
+
assert(aln.target_end==7323)
|
39
|
+
assert(aln.target_strand==:reverse)
|
40
|
+
assert(aln.score==462.0)
|
41
|
+
assert(aln.pi==96.04)
|
42
|
+
assert(aln.ql==101)
|
43
|
+
assert(aln.tl==11974)
|
44
|
+
assert(aln.g==".")
|
45
|
+
assert(aln.vulgar_block.join(',')=="M 69 69 0 69 7425 7356,G 0 1 69 69 7356 7355,M 32 32 69 101 7355 7323" )
|
46
|
+
assert(aln.line==line)
|
47
|
+
|
48
|
+
#puts aln.vulgar_block.inspect
|
49
|
+
#puts aln.inspect
|
50
|
+
end
|
51
|
+
|
52
|
+
|
53
|
+
end
|
@@ -0,0 +1,40 @@
|
|
1
|
+
$: << File.expand_path(File.dirname(__FILE__) + '/../lib')
|
2
|
+
$: << File.expand_path('.')
|
3
|
+
path= File.expand_path(File.dirname(__FILE__) + '/../lib/bioruby-polyploid-tools.rb')
|
4
|
+
|
5
|
+
#puts path
|
6
|
+
require path
|
7
|
+
require "test/unit"
|
8
|
+
|
9
|
+
class TestPolyploidTools < Test::Unit::TestCase
|
10
|
+
|
11
|
+
#Set up the paths
|
12
|
+
def setup
|
13
|
+
|
14
|
+
end
|
15
|
+
|
16
|
+
def teardown
|
17
|
+
|
18
|
+
end
|
19
|
+
|
20
|
+
|
21
|
+
def test_default
|
22
|
+
# puts $LOAD_PATH
|
23
|
+
assert(true, "Unit test test")
|
24
|
+
end
|
25
|
+
|
26
|
+
def test_snp_sequence
|
27
|
+
snp = Bio::PolyploidTools::SNPSequence.parse("BS00068396_51,2A,CGAAGCGATCCTACTACATTGCGTTCCTTTCCCACTCCCAGGTCCCCCTA[T/C]ATGCAGGATCTTGATTAGTCGTGTGAACAACTGAAATTTGAGCGCCACAA")
|
28
|
+
assert(snp.gene == "BS00068396_51" )
|
29
|
+
assert(snp.chromosome == "2A")
|
30
|
+
|
31
|
+
assert(snp.sequence_original == "CGAAGCGATCCTACTACATTGCGTTCCTTTCCCACTCCCAGGTCCCCCTA[T/C]ATGCAGGATCTTGATTAGTCGTGTGAACAACTGAAATTTGAGCGCCACAA")
|
32
|
+
|
33
|
+
assert_equal(snp.position , 51, "Position isnt parsed #{snp.position}")
|
34
|
+
assert_equal(snp.original , "T", "ORiginal base not parsed, is #{snp.original}")
|
35
|
+
assert_equal(snp.snp , "C")
|
36
|
+
assert(snp.template_sequence == "CGAAGCGATCCTACTACATTGCGTTCCTTTCCCACTCCCAGGTCCCCCTAYATGCAGGATCTTGATTAGTCGTGTGAACAACTGAAATTTGAGCGCCACAA", "#{snp.template_sequence}!=CGAAGCGATCCTACTACATTGCGTTCCTTTCCCACTCCCAGGTCCCCCTAYATGCAGGATCTTGATTAGTCGTGTGAACAACTGAAATTTGAGCGCCACAA")
|
37
|
+
#true
|
38
|
+
end
|
39
|
+
|
40
|
+
end
|
metadata
ADDED
@@ -0,0 +1,201 @@
|
|
1
|
+
--- !ruby/object:Gem::Specification
|
2
|
+
name: bio-polyploid-tools
|
3
|
+
version: !ruby/object:Gem::Version
|
4
|
+
version: 0.1.0
|
5
|
+
platform: ruby
|
6
|
+
authors:
|
7
|
+
- Ricardo H. Ramirez-Gonzalez
|
8
|
+
autorequire:
|
9
|
+
bindir: bin
|
10
|
+
cert_chain: []
|
11
|
+
date: 2014-03-31 00:00:00.000000000 Z
|
12
|
+
dependencies:
|
13
|
+
- !ruby/object:Gem::Dependency
|
14
|
+
name: bio
|
15
|
+
requirement: !ruby/object:Gem::Requirement
|
16
|
+
requirements:
|
17
|
+
- - '='
|
18
|
+
- !ruby/object:Gem::Version
|
19
|
+
version: 1.4.2
|
20
|
+
type: :runtime
|
21
|
+
prerelease: false
|
22
|
+
version_requirements: !ruby/object:Gem::Requirement
|
23
|
+
requirements:
|
24
|
+
- - '='
|
25
|
+
- !ruby/object:Gem::Version
|
26
|
+
version: 1.4.2
|
27
|
+
- !ruby/object:Gem::Dependency
|
28
|
+
name: bio-samtools
|
29
|
+
requirement: !ruby/object:Gem::Requirement
|
30
|
+
requirements:
|
31
|
+
- - '='
|
32
|
+
- !ruby/object:Gem::Version
|
33
|
+
version: 0.6.2
|
34
|
+
type: :runtime
|
35
|
+
prerelease: false
|
36
|
+
version_requirements: !ruby/object:Gem::Requirement
|
37
|
+
requirements:
|
38
|
+
- - '='
|
39
|
+
- !ruby/object:Gem::Version
|
40
|
+
version: 0.6.2
|
41
|
+
- !ruby/object:Gem::Dependency
|
42
|
+
name: rake
|
43
|
+
requirement: !ruby/object:Gem::Requirement
|
44
|
+
requirements:
|
45
|
+
- - ">="
|
46
|
+
- !ruby/object:Gem::Version
|
47
|
+
version: '0'
|
48
|
+
type: :runtime
|
49
|
+
prerelease: false
|
50
|
+
version_requirements: !ruby/object:Gem::Requirement
|
51
|
+
requirements:
|
52
|
+
- - ">="
|
53
|
+
- !ruby/object:Gem::Version
|
54
|
+
version: '0'
|
55
|
+
- !ruby/object:Gem::Dependency
|
56
|
+
name: jeweler
|
57
|
+
requirement: !ruby/object:Gem::Requirement
|
58
|
+
requirements:
|
59
|
+
- - ">="
|
60
|
+
- !ruby/object:Gem::Version
|
61
|
+
version: '0'
|
62
|
+
type: :runtime
|
63
|
+
prerelease: false
|
64
|
+
version_requirements: !ruby/object:Gem::Requirement
|
65
|
+
requirements:
|
66
|
+
- - ">="
|
67
|
+
- !ruby/object:Gem::Version
|
68
|
+
version: '0'
|
69
|
+
description: Repository of tools developed in TGAC and Crop Genetics in JIC to work
|
70
|
+
with polyploid wheat
|
71
|
+
email: ricardo.ramirez-gonzalez@tgac.ac.uk
|
72
|
+
executables:
|
73
|
+
- bfr.rb
|
74
|
+
- count_variations.rb
|
75
|
+
- filter_blat_by_target_coverage.rb
|
76
|
+
- find_best_blat_hit.rb
|
77
|
+
- hexaploid_primers.rb
|
78
|
+
- homokaryot_primers.rb
|
79
|
+
- map_markers_to_contigs.rb
|
80
|
+
- markers_in_region.rb
|
81
|
+
- polymarker.rb
|
82
|
+
- snps_between_bams.rb
|
83
|
+
extensions: []
|
84
|
+
extra_rdoc_files:
|
85
|
+
- README
|
86
|
+
files:
|
87
|
+
- Gemfile
|
88
|
+
- Gemfile.lock
|
89
|
+
- README
|
90
|
+
- Rakefile
|
91
|
+
- VERSION
|
92
|
+
- bin/bfr.rb
|
93
|
+
- bin/count_variations.rb
|
94
|
+
- bin/filter_blat_by_target_coverage.rb
|
95
|
+
- bin/find_best_blat_hit.rb
|
96
|
+
- bin/hexaploid_primers.rb
|
97
|
+
- bin/homokaryot_primers.rb
|
98
|
+
- bin/map_markers_to_contigs.rb
|
99
|
+
- bin/markers_in_region.rb
|
100
|
+
- bin/polymarker.rb
|
101
|
+
- bin/snps_between_bams.rb
|
102
|
+
- bio-polyploid-tools.gemspec
|
103
|
+
- conf/defaults.rb
|
104
|
+
- conf/primer3_config/dangle.dh
|
105
|
+
- conf/primer3_config/dangle.ds
|
106
|
+
- conf/primer3_config/interpretations/dangle_i.dh
|
107
|
+
- conf/primer3_config/interpretations/dangle_i.ds
|
108
|
+
- conf/primer3_config/interpretations/loops_i.dh
|
109
|
+
- conf/primer3_config/interpretations/loops_i.ds
|
110
|
+
- conf/primer3_config/interpretations/stack_i.dh
|
111
|
+
- conf/primer3_config/interpretations/stack_i.ds
|
112
|
+
- conf/primer3_config/interpretations/stackmm_i_mm.dh
|
113
|
+
- conf/primer3_config/interpretations/stackmm_i_mm.ds
|
114
|
+
- conf/primer3_config/interpretations/tetraloop_i.dh
|
115
|
+
- conf/primer3_config/interpretations/tetraloop_i.ds
|
116
|
+
- conf/primer3_config/interpretations/triloop_i.dh
|
117
|
+
- conf/primer3_config/interpretations/triloop_i.ds
|
118
|
+
- conf/primer3_config/interpretations/tstack2_i.dh
|
119
|
+
- conf/primer3_config/interpretations/tstack2_i.ds
|
120
|
+
- conf/primer3_config/interpretations/tstack_i.dh
|
121
|
+
- conf/primer3_config/interpretations/tstack_i.ds
|
122
|
+
- conf/primer3_config/interpretations/tstack_tm_inf_i.dh
|
123
|
+
- conf/primer3_config/interpretations/tstack_tm_inf_i.ds
|
124
|
+
- conf/primer3_config/loops.dh
|
125
|
+
- conf/primer3_config/loops.ds
|
126
|
+
- conf/primer3_config/stack.dh
|
127
|
+
- conf/primer3_config/stack.ds
|
128
|
+
- conf/primer3_config/stackmm.dh
|
129
|
+
- conf/primer3_config/stackmm.ds
|
130
|
+
- conf/primer3_config/tetraloop.dh
|
131
|
+
- conf/primer3_config/tetraloop.ds
|
132
|
+
- conf/primer3_config/triloop.dh
|
133
|
+
- conf/primer3_config/triloop.ds
|
134
|
+
- conf/primer3_config/tstack.dh
|
135
|
+
- conf/primer3_config/tstack2.dh
|
136
|
+
- conf/primer3_config/tstack2.ds
|
137
|
+
- conf/primer3_config/tstack_tm_inf.ds
|
138
|
+
- lib/bio/BFRTools.rb
|
139
|
+
- lib/bio/BIOExtensions.rb
|
140
|
+
- lib/bio/PolyploidTools/ChromosomeArm.rb
|
141
|
+
- lib/bio/PolyploidTools/ExonContainer.rb
|
142
|
+
- lib/bio/PolyploidTools/Marker.rb
|
143
|
+
- lib/bio/PolyploidTools/PrimerRegion.rb
|
144
|
+
- lib/bio/PolyploidTools/SNP.rb
|
145
|
+
- lib/bio/PolyploidTools/SNPSequence.rb
|
146
|
+
- lib/bio/SAMToolsExtensions.rb
|
147
|
+
- lib/bio/db/exonerate.rb
|
148
|
+
- lib/bio/db/fastadb.rb
|
149
|
+
- lib/bio/db/primer3.rb
|
150
|
+
- lib/bioruby-polyploid-tools.rb
|
151
|
+
- test/data/BS00068396_51.fa
|
152
|
+
- test/data/BS00068396_51_contigs.aln
|
153
|
+
- test/data/BS00068396_51_contigs.dnd
|
154
|
+
- test/data/BS00068396_51_contigs.fa
|
155
|
+
- test/data/BS00068396_51_exonerate.tab
|
156
|
+
- test/data/BS00068396_51_genes.txt
|
157
|
+
- test/data/LIB1716.bam
|
158
|
+
- test/data/LIB1716.bam.bai
|
159
|
+
- test/data/LIB1719.bam
|
160
|
+
- test/data/LIB1719.bam.bai
|
161
|
+
- test/data/LIB1721.bam
|
162
|
+
- test/data/LIB1721.bam.bai
|
163
|
+
- test/data/LIB1722.bam
|
164
|
+
- test/data/LIB1722.bam.bai
|
165
|
+
- test/data/S22380157.fa
|
166
|
+
- test/data/S22380157.fa.fai
|
167
|
+
- test/data/Test3Aspecific.csv
|
168
|
+
- test/data/Test3Aspecific_contigs.fa
|
169
|
+
- test/data/patological_cases5D.csv
|
170
|
+
- test/data/short_primer_design_test.csv
|
171
|
+
- test/data/test_primer3_error.csv
|
172
|
+
- test/data/test_primer3_error_contigs.fa
|
173
|
+
- test/test_bfr.rb
|
174
|
+
- test/test_exon_container.rb
|
175
|
+
- test/test_exonearate.rb
|
176
|
+
- test/test_snp_parsing.rb
|
177
|
+
homepage: http://github.com/tgac/bioruby-polyploid-tools
|
178
|
+
licenses:
|
179
|
+
- MIT
|
180
|
+
metadata: {}
|
181
|
+
post_install_message:
|
182
|
+
rdoc_options: []
|
183
|
+
require_paths:
|
184
|
+
- lib
|
185
|
+
required_ruby_version: !ruby/object:Gem::Requirement
|
186
|
+
requirements:
|
187
|
+
- - ">="
|
188
|
+
- !ruby/object:Gem::Version
|
189
|
+
version: '0'
|
190
|
+
required_rubygems_version: !ruby/object:Gem::Requirement
|
191
|
+
requirements:
|
192
|
+
- - ">="
|
193
|
+
- !ruby/object:Gem::Version
|
194
|
+
version: '0'
|
195
|
+
requirements: []
|
196
|
+
rubyforge_project:
|
197
|
+
rubygems_version: 2.2.1
|
198
|
+
signing_key:
|
199
|
+
specification_version: 4
|
200
|
+
summary: Tool to work with polyploids, NGS and molecular biology
|
201
|
+
test_files: []
|